diff --git a/src/ontology/imports/local-poro.owl b/src/ontology/imports/local-poro.owl index 1f1ac7c574..bb6d9076a1 100644 --- a/src/ontology/imports/local-poro.owl +++ b/src/ontology/imports/local-poro.owl @@ -12,17 +12,17 @@ xmlns:sponge="http://purl.obolibrary.org/obo/sponge#" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + Bob Thacker Chris Mungall An ontology describing the anatomical structures and characteristics of Porifera (sponges) Porifera (sponge) ontology Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/chebi_import.owl>) VersionIRI(<null>))) [Axioms: 1096 Logical Axioms: 215] - Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/cl_import.owl>) VersionIRI(<null>))) [Axioms: 625 Logical Axioms: 228] - Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/go_import.owl>) VersionIRI(<null>))) [Axioms: 293 Logical Axioms: 79] + Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/cl_import.owl>) VersionIRI(<null>))) [Axioms: 630 Logical Axioms: 229] + Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/go_import.owl>) VersionIRI(<null>))) [Axioms: 295 Logical Axioms: 79] Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/pato_import.owl>) VersionIRI(<null>))) [Axioms: 33 Logical Axioms: 3] Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/ro_import.owl>) VersionIRI(<null>))) [Axioms: 262 Logical Axioms: 97] - Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/uberon_import.owl>) VersionIRI(<null>))) [Axioms: 552 Logical Axioms: 158] + Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/poro/imports/uberon_import.owl>) VersionIRI(<null>))) [Axioms: 0 Logical Axioms: 0] https://github.com/obophenotype/porifera-ontology @@ -169,22 +169,6 @@ - - - - - - - - - - - - - - - - @@ -237,20 +221,6 @@ - - - - - - - - - - - - - - @@ -288,7 +258,6 @@ - @@ -314,7 +283,6 @@ - @@ -347,7 +315,6 @@ - @@ -393,7 +360,6 @@ - @@ -408,41 +374,6 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - @@ -457,7 +388,6 @@ - @@ -642,84 +572,6 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - @@ -831,15 +683,6 @@ - - - - - - - - - @@ -857,18 +700,6 @@ - - - - - - - - - - - - @@ -3398,6 +3229,7 @@ A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body. eukaryotic flagellum microtubule-based flagellum + primary cilium flagellum cilium @@ -3708,8 +3540,9 @@ - A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which the constituent parts function together. + A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. macromolecule complex + protein containing complex macromolecular complex @@ -4312,7 +4145,7 @@ A quality which inheres in a continuant. monadic quality of a continuant - multiply inhering quality of a physical entity + multiply inhering quality of a physical entity quality of a continuant quality of a single physical entity quality of an object @@ -15817,31 +15650,10 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity. - processual entity - - - - - - - - - - - - - - - - Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome. biological structure connected biological structure @@ -15860,12 +15672,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - Anatomical structure that performs a specific function or group of functions [WP]. anatomical unit body organ @@ -15875,545 +15681,126 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - + - - - - - - - - - - - - - - - - - - - - - The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage. - adult stage - fully formed animal stage - juvenile-adult stage - fully formed stage + + - + - - - - - - - - - - - - - - - - - - - - A stage that is part of the embryo stage. - embryonic stage part - embryo stage part + + + Anatomical entity that has mass. + material anatomical entity - + - - - - - - - - - - - - - - - A life cycle stage that starts with fertilization and ends with the fully formed embryo. - embryonic stage - embryogenesis - embryo stage + + + Anatomical entity that has no mass. + immaterial physical anatomical entity + immaterial anatomical entity - + - - + + - - - - - - - + - A distinct juvenile stage many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle. - larva stage - ammocoete - ammocoete stage - bipinnaria - bipinnaria stage - caterpillar - caterpillar stage - glochidium - glochidium stage - grub - grub stage - leptocephalus - leptocephalus stage - maggot - maggot stage - metacestode - naiad, nymph - naiad, nymph stage - nauplius - nauplius stage - nymph - nymph stage - planula - planula stage - tornaria - trochophore - trochophore stage - veliger - veliger stage - wriggler - wriggler stage - zoea - zoea stage - larva - larval stage - - - - - - - - - - + + - End of the life of an organism. - death - death stage + Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function. + system + body system + connected anatomical system + organ system + anatomical systems + anatomical system - + - - - - - - - - - stage succeeding embryo, including mature structure - postembryonic stage - post-hatching stage - postembryonic - post-embryonic stage + + + Anatomical structure that is an individual member of a species and consists of more than one cell. + multi-cellular organism + organism + whole organism + animal + Koerper + body + whole body + multicellular organism - + - - - - - - - - - - - - - - - An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism. - entire life cycle - entire lifespan - life - lifespan - life cycle + + + Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. + acellular anatomical structures + acellular anatomical structure - + - - - + + - + - A spatiotemporal region encompassing some part of the life cycle of an organism. - developmental stage - stage - life cycle stage + Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. + portion of tissue + tissue portion + simple tissue + tissue - + - - - - - - - - - A stage at which the organism is a single cell produced by means of sexual reproduction. - 1-cell stage - fertilized egg stage - one cell stage - fertilized egg stage - one-cell stage - zygote - zygotum - zygote stage + + - + - - + + + - - - - - The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula. - cleavage stage - - - - - - - - - - - - - - - An early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence. - blastula stage - - - - - - - - - - - - - - - A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm. - blastocystis trilaminaris stage - trilaminar blastocyst stage - trilaminar blastoderm stage - trilaminar disk stage - trilaminar germ stage - trilaminar stage - gastrula stage - - - - - - - - - - - - - - - Staged defined by the formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system. - neurula stage - - - - - - - - - - - - - - - A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism. - segmentation stage - organogenesis stage - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence. - blastula embryo - blastosphere - blastula - - - - - - - - - Anatomical entity that has mass. - material anatomical entity - - - - - - - - - - Anatomical entity that has no mass. - immaterial physical anatomical entity - immaterial anatomical entity - - - - - - - - - - - - - - - - - - - - - - - - - - - Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function. - system - body system - connected anatomical system - organ system - anatomical systems - anatomical system - - - - - - - - - Anatomical structure that is an individual member of a species and consists of more than one cell. - multi-cellular organism - organism - whole organism - animal - Koerper - body - whole body - multicellular organism - - - - - - - - - Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue. - acellular anatomical structures - acellular anatomical structure - - - - - - - - - - - - - - - Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation. - portion of tissue - tissue portion - simple tissue - tissue - - - - - - - - - - - - - - - - Anatomical structure consisting of at least two non-overlapping organs, multi-tissue aggregates or portion of tissues or cells of different types that does not constitute an organism, organ, multi-tissue aggregate, or portion of tissue. - anatomical group - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant. - embryonic organism - developing organism - developmental tissue - embryo - - - - - - - - - - - - - - - - - - - + + Anatomical system that has as its parts the organs concerned with reproduction. @@ -16493,78 +15880,11 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - - - - - - - - - - - - - - - Anatomical structure that is part of an embryo. - developing embryonic structure - embryonic anatomical structure - developing structure - embryonale Struktur - embryonic structures - embryonic structure - - - - - - - - - - - - - - - - - - - - - - A distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle. a distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle. - larval organism - ammocoete - bipinnaria - caterpillar - glochidium - grub - leptocephalus - maggot - naiad - nymph - planula - tadpole - trochophore - veliger - wriggler - zoea larva @@ -16597,82 +15917,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - - - - - - - - - - - - - - - - - - - - An embryo at the neurula stage. - neurula - neurula embryo - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Organism at the gastrula stage. - gastrula embryo - blastocystis trilaminaris - tri-laminar disc - tri-laminar disk - trilaminar blastocyst - trilaminar blastoderm - trilaminar disc - trilaminar disk - trilaminar germ - gastrula - - - - @@ -16702,36 +15946,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - - - - - - - - - - - - - - - A portion of tissue that is part of an embryo. - portion of embryonic tissue - developing tissue - embryonic tissue - - - - @@ -16754,12 +15968,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - Portion of tissue that gives rise to the immature gonad. future gonad gonadal primordium @@ -16771,124 +15979,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Portion of embryonic tissue determined by fate mapping to become a structure. - future structure - presumptive structures - presumptive structure - - - - - - - - - A two dimensional anatomical structure that is the boundary between an anatomical structure and an anatomical substance, an anatomical space or the organism's environment. Examples include the surface of your skin, the surface of the lining of your gut; the surface of the endothelium of you aorta that is in contact with blood.n - anatomical surface - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Organism at the cleavage stage. - cleaving embryo - - - - - - - - - - - - - - - - - - - - - - - - - - A multicellular organism that existence_starts_with a post-embryonic stage. - postnatal organism - TS28 mouse - post-hatching organism - post-natal organism - postnatal mouse - post-embryonic organism - - - - @@ -16967,24 +16057,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - - - - - - - - - - @@ -17009,16 +16081,6 @@ A texture quality inhering in a bearer by virtue of the bearer's posessing - - - - - - - - - -