From 6f41468c195e7ef0b3222f00f5e99bcd8f86e504 Mon Sep 17 00:00:00 2001 From: Nico Matentzoglu Date: Thu, 4 Apr 2024 21:26:57 +0300 Subject: [PATCH] Update ro_import.owl --- src/ontology/imports/ro_import.owl | 422 +---------------------------- 1 file changed, 7 insertions(+), 415 deletions(-) diff --git a/src/ontology/imports/ro_import.owl b/src/ontology/imports/ro_import.owl index 88c5bf4..4d6ab9e 100644 --- a/src/ontology/imports/ro_import.owl +++ b/src/ontology/imports/ro_import.owl @@ -7,9 +7,9 @@ Prefix(rdfs:=) Ontology( - -Annotation( ) -Annotation(owl:versionInfo "2024-03-27") + +Annotation( ) +Annotation(owl:versionInfo "2024-04-04") Declaration(Class()) Declaration(Class()) @@ -32,15 +32,9 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) -Declaration(Class()) Declaration(Class()) -Declaration(Class()) Declaration(Class()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) @@ -158,15 +152,6 @@ Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) Declaration(ObjectProperty()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) -Declaration(NamedIndividual()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -180,7 +165,6 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -194,11 +178,8 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) +Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) @@ -212,11 +193,8 @@ Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty()) -Declaration(AnnotationProperty()) Declaration(AnnotationProperty(rdfs:comment)) Declaration(AnnotationProperty(rdfs:label)) Declaration(AnnotationProperty(rdfs:seeAlso)) @@ -229,53 +207,8 @@ Declaration(AnnotationProperty()) # Annotation Property: (definition) -AnnotationAssertion( "definition"@en) -AnnotationAssertion( ) -AnnotationAssertion( "The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en) -AnnotationAssertion( "2012-04-05: -Barry Smith - -The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible. - -Can you fix to something like: - -A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property. - -Alan Ruttenberg - -Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. - -On the specifics of the proposed definition: - -We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. - -Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. - -We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with. "@en) -AnnotationAssertion( "PERSON:Daniel Schober"@en) -AnnotationAssertion( "GROUP:OBI:"@en) -AnnotationAssertion(rdfs:label "definition"@en) AnnotationAssertion(rdfs:label "definition") -# Annotation Property: (editor note) - -AnnotationAssertion( "editor note"@en) -AnnotationAssertion( ) -AnnotationAssertion( "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology."@en) -AnnotationAssertion( "PERSON:Daniel Schober"@en) -AnnotationAssertion( "GROUP:OBI:"@en) -AnnotationAssertion(rdfs:label "editor note"@en) - -# Annotation Property: (term editor) - -AnnotationAssertion( "term editor"@en) -AnnotationAssertion( ) -AnnotationAssertion( "Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people"@en) -AnnotationAssertion( "20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115."@en) -AnnotationAssertion( "PERSON:Daniel Schober"@en) -AnnotationAssertion( "GROUP:OBI:"@en) -AnnotationAssertion(rdfs:label "term editor"@en) - # Annotation Property: () SubAnnotationPropertyOf( ) @@ -310,14 +243,6 @@ SubAnnotationPropertyOf( ) -# Annotation Property: () - -SubAnnotationPropertyOf( ) - -# Annotation Property: () - -SubAnnotationPropertyOf( ) - ############################ # Object Properties @@ -349,7 +274,6 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "part of"@en) -AnnotationAssertion(rdfs:label "part of") AnnotationAssertion(rdfs:seeAlso ) AnnotationAssertion(rdfs:seeAlso ) AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Part_of"^^xsd:anyURI) @@ -376,7 +300,6 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "has part"@en) -AnnotationAssertion(rdfs:label "has part") SubObjectPropertyOf( ) TransitiveObjectProperty() @@ -449,11 +372,9 @@ AnnotationAssertion( "Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant") AnnotationAssertion(rdfs:isDefinedBy ) AnnotationAssertion(rdfs:label "occurs in"@en) -AnnotationAssertion(rdfs:label "occurs in") AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Occurs_in"^^xsd:anyURI) InverseObjectProperties( ) ObjectPropertyDomain( ) -ObjectPropertyDomain( ) ObjectPropertyRange( ) # Object Property: (contains process) @@ -489,8 +410,6 @@ AnnotationAssertion( "is bearer of"@en) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "has characteristic"@en) -AnnotationAssertion(rdfs:label "has characteristic") -AnnotationAssertion(rdfs:seeAlso "https://github.com/oborel/obo-relations/pull/284") InverseFunctionalObjectProperty() ObjectPropertyRange( ) @@ -518,9 +437,7 @@ AnnotationAssertion( "has_participant"@en) AnnotationAssertion( "http://www.obofoundry.org/ro/#OBO_REL:has_participant") AnnotationAssertion(rdfs:label "has participant"@en) -AnnotationAssertion(rdfs:label "has participant") ObjectPropertyDomain( ) -ObjectPropertyDomain( ) ObjectPropertyRange( ) # Object Property: (is concretized as) @@ -987,7 +904,6 @@ AnnotationAssertion( ) AnnotationAssertion( ) AnnotationAssertion(rdfs:label "enabled by"@en) -AnnotationAssertion(rdfs:label "enabled by") AnnotationAssertion(rdfs:seeAlso "https://wiki.geneontology.org/Enabled_by"^^xsd:anyURI) SubObjectPropertyOf( ) SubObjectPropertyOf( ) @@ -1666,7 +1582,6 @@ AnnotationAssertion( "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t."@en) AnnotationAssertion(rdfs:label "process"@en) SubClassOf( ) -SubClassOf( ObjectAllValuesFrom( )) # Class: (disposition) @@ -1677,7 +1592,6 @@ DisjointClasses( (realizable entity) AnnotationAssertion( "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances."@en) -AnnotationAssertion(rdfs:label "realizable"@en) AnnotationAssertion(rdfs:label "realizable entity"@en) SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) @@ -1689,17 +1603,13 @@ AnnotationAssertion(rdfs:label "qua SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) -# Class: (characteristic) +# Class: (specifically dependent continuant) AnnotationAssertion( "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])"@en) AnnotationAssertion(rdfs:comment "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same."@en) -AnnotationAssertion(rdfs:label "characteristic"@en) AnnotationAssertion(rdfs:label "specifically dependent continuant"@en) -AnnotationAssertion(rdfs:seeAlso "https://github.com/OBOFoundry/COB/issues/65") -AnnotationAssertion(rdfs:seeAlso "https://github.com/oborel/obo-relations/pull/284") SubClassOf( ) SubClassOf( ObjectAllValuesFrom( )) -SubClassOf( ObjectAllValuesFrom( )) DisjointClasses( ) # Class: (role) @@ -1739,327 +1649,9 @@ DisjointClasses( ObjectSomeValuesFro SubClassOf( ) -# Class: (cell) - -AnnotationAssertion(Annotation( "CARO:mah") "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.") -AnnotationAssertion( "A material entity that has a plasma membrane and results from cellular division.") -AnnotationAssertion( "CALOHA:TS-2035") -AnnotationAssertion( "FBbt:00007002") -AnnotationAssertion( "FMA:68646") -AnnotationAssertion( "GO:0005623") -AnnotationAssertion( "KUPO:0000002") -AnnotationAssertion( "MESH:D002477") -AnnotationAssertion( "VHOG:0001533") -AnnotationAssertion( "WBbt:0004017") -AnnotationAssertion( "XAO:0003012") -AnnotationAssertion(rdfs:comment "CL and GO definitions of cell differ based on inclusive or exclusive of cell wall, etc.") -AnnotationAssertion(rdfs:comment "The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one).") -AnnotationAssertion(rdfs:comment "We struggled with this definition. We are worried about circularity. We also considered requiring the capability of metabolism.") -AnnotationAssertion(rdfs:label "cell"@en) -AnnotationAssertion(rdfs:label "cell") -SubClassOf( ) - -# Class: (measurement datum) - -AnnotationAssertion(rdfs:label "measurement datum") - -# Class: (exposure of organism) - -AnnotationAssertion( "A process during which an organism comes into contact with another entity.") -AnnotationAssertion(rdfs:label "exposure of organism"@en) -SubClassOf( ) - -# Class: (molecular_function) - -AnnotationAssertion(Annotation( "GOC:pdt") "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.") -AnnotationAssertion( "molecular function") -AnnotationAssertion( "GO:0003674") -AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.") -AnnotationAssertion(rdfs:comment "This is the same as GO molecular function") -AnnotationAssertion(rdfs:label "gene product or complex activity"@en) -AnnotationAssertion(rdfs:label "molecular_function") -SubClassOf( ) -DisjointClasses( ) - -# Class: (nucleus) - -AnnotationAssertion(Annotation( "GOC:go_curators") "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.") -AnnotationAssertion( "NIF_Subcellular:sao1702920020") -AnnotationAssertion( "Wikipedia:Cell_nucleus") -AnnotationAssertion( "cell nucleus") -AnnotationAssertion(Annotation( "GOC:al") Annotation( "GOC:mah") Annotation( "GOC:vw") Annotation( "PMID:15030757") "horsetail nucleus") -AnnotationAssertion( "GO:0005634") -AnnotationAssertion(rdfs:label "cell nucleus"@en) -AnnotationAssertion(rdfs:label "nucleus") -SubClassOf( ) - -# Class: (biological_process) - -AnnotationAssertion(Annotation( "GOC:pdt") "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.") -AnnotationAssertion( "A process that emerges from two or more causally-connected macromolecular activities and has evolved to achieve a biological objective.") -AnnotationAssertion( "jl") -AnnotationAssertion( "2012-09-19T15:05:24Z") -AnnotationAssertion( "Wikipedia:Biological_process") -AnnotationAssertion( "biological process") -AnnotationAssertion( "physiological process") -AnnotationAssertion( "single organism process") -AnnotationAssertion( "single-organism process") -AnnotationAssertion( "GO:0008150") -AnnotationAssertion(rdfs:comment "A biological process is an evolved process") -AnnotationAssertion(rdfs:comment "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.") -AnnotationAssertion(rdfs:label "biological process"@en) -AnnotationAssertion(rdfs:label "biological_process") -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) - -# Class: (kinase activity) - -AnnotationAssertion(Annotation( "ISBN:0198506732") "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.") -AnnotationAssertion(Annotation(rdfs:label "FN3KRP phosphorylates PsiAm, RibAm") "Reactome:R-HSA-6788855") -AnnotationAssertion(Annotation(rdfs:label "FN3K phosphorylates ketosamines") "Reactome:R-HSA-6788867") -AnnotationAssertion( "phosphokinase activity") -AnnotationAssertion( "GO:0016301") -AnnotationAssertion(rdfs:comment "Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.") -AnnotationAssertion(rdfs:label "kinase activity") -SubClassOf( ) -SubClassOf( ObjectHasSelf()) - -# Class: (information content entity) - -AnnotationAssertion( "information content entity"@en) -AnnotationAssertion(rdfs:label "information content entity"@en) -SubClassOf( ) - -# Class: (curation status specification) - -AnnotationAssertion( "curation status specification"@en) -AnnotationAssertion( ) -AnnotationAssertion( "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value."@en) -AnnotationAssertion( "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)"@en) -AnnotationAssertion( "PERSON:Bill Bug"@en) -AnnotationAssertion( "GROUP:OBI:"@en) -AnnotationAssertion( "OBI_0000266"@en) -AnnotationAssertion(rdfs:label "curation status specification"@en) -EquivalentClasses( ObjectOneOf( )) - -# Class: (processed material) - -AnnotationAssertion( "processed material"@en) -AnnotationAssertion( "Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples"@en) -AnnotationAssertion( ) -AnnotationAssertion( "Is a material entity that is created or changed during material processing."@en) -AnnotationAssertion( "PERSON: Alan Ruttenberg"@en) -AnnotationAssertion(rdfs:label "processed material"@en) -SubClassOf( ) - -# Class: (organism) - -AnnotationAssertion( "organism"@en) -AnnotationAssertion( "animal"@en) -AnnotationAssertion( "fungus"@en) -AnnotationAssertion( "plant"@en) -AnnotationAssertion( "virus"@en) -AnnotationAssertion( ) -AnnotationAssertion( "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs."@en) -AnnotationAssertion( "10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')") -AnnotationAssertion( "13-02-2009: -OBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus. -This issue is outside the scope of OBI.") -AnnotationAssertion( "GROUP: OBI Biomaterial Branch") -AnnotationAssertion( "WEB: http://en.wikipedia.org/wiki/Organism"@en) -AnnotationAssertion(rdfs:label "organism"@en) -SubClassOf( ) - -# Class: (quality) - -AnnotationAssertion(Annotation( "PATOC:GVG") "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities") -AnnotationAssertion( "PATO:0000001") -AnnotationAssertion(rdfs:label "quality") -SubClassOf( ) - -# Class: (anatomical structure) - -AnnotationAssertion(Annotation( "CARO:0000003") "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome.") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion( "AAO:0010825") -AnnotationAssertion( "AEO:0000003") -AnnotationAssertion( "BILA:0000003") -AnnotationAssertion( "CARO:0000003") -AnnotationAssertion( "EHDAA2:0003003") -AnnotationAssertion( "EMAPA:0") -AnnotationAssertion( "FMA:305751") -AnnotationAssertion( "FMA:67135") -AnnotationAssertion( "GAID:781") -AnnotationAssertion( "HAO:0000003") -AnnotationAssertion( "MA:0003000") -AnnotationAssertion( "MESH:D000825") -AnnotationAssertion( "SCTID:362889002") -AnnotationAssertion( "TAO:0000037") -AnnotationAssertion( "TGMA:0001823") -AnnotationAssertion( "VHOG:0001759") -AnnotationAssertion( "XAO:0003000") -AnnotationAssertion( "ZFA:0000037") -AnnotationAssertion( "http://dbpedia.org/ontology/AnatomicalStructure") -AnnotationAssertion( "biological structure") -AnnotationAssertion(Annotation( "CARO:0000003") "connected biological structure") -AnnotationAssertion( "UBERON:0000061") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "anatomical structure") -SubClassOf( ) - -# Class: (material anatomical entity) - -AnnotationAssertion(Annotation( "http://orcid.org/0000-0001-9114-8737") "Anatomical entity that has mass.") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion( "AAO:0010264") -AnnotationAssertion( "AEO:0000006") -AnnotationAssertion( "BILA:0000006") -AnnotationAssertion( "CARO:0000006") -AnnotationAssertion( "EHDAA2:0003006") -AnnotationAssertion( "FMA:67165") -AnnotationAssertion( "HAO:0000006") -AnnotationAssertion( "TAO:0001836") -AnnotationAssertion( "TGMA:0001826") -AnnotationAssertion( "VHOG:0001721") -AnnotationAssertion( "UBERON:0000465") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "material anatomical entity") -SubClassOf( ) -SubClassOf( ) -DisjointClasses( ) - -# Class: (immaterial anatomical entity) - -AnnotationAssertion(Annotation( "http://orcid.org/0000-0001-9114-8737") "Anatomical entity that has no mass.") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion( "AAO:0010265") -AnnotationAssertion( "AEO:0000007") -AnnotationAssertion( "BILA:0000007") -AnnotationAssertion( "CARO:0000007") -AnnotationAssertion( "EHDAA2:0003007") -AnnotationAssertion( "FMA:67112") -AnnotationAssertion( "HAO:0000007") -AnnotationAssertion( "TAO:0001835") -AnnotationAssertion( "TGMA:0001827") -AnnotationAssertion( "VHOG:0001727") -AnnotationAssertion(Annotation( "FMA:67112") "immaterial physical anatomical entity") -AnnotationAssertion( "UBERON:0000466") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "immaterial anatomical entity") -SubClassOf( ) -SubClassOf( ) - -# Class: (anatomical entity) - -AnnotationAssertion(Annotation( "FMA:62955") Annotation( "http://orcid.org/0000-0001-9114-8737") "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species.") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion( "AAO:0010841") -AnnotationAssertion( "AEO:0000000") -AnnotationAssertion( "BFO:0000004") -AnnotationAssertion( "BILA:0000000") -AnnotationAssertion( "BIRNLEX:6") -AnnotationAssertion( "CARO:0000000") -AnnotationAssertion( "EHDAA2:0002229") -AnnotationAssertion( "FMA:62955") -AnnotationAssertion( "HAO:0000000") -AnnotationAssertion( "MA:0000001") -AnnotationAssertion( "NCIT:C12219") -AnnotationAssertion( "TAO:0100000") -AnnotationAssertion( "TGMA:0001822") -AnnotationAssertion(Annotation( "ncithesaurus:Anatomic_Structure_System_or_Substance") "UMLS:C1515976") -AnnotationAssertion( "WBbt:0000100") -AnnotationAssertion( "XAO:0000000") -AnnotationAssertion( "ZFA:0100000") -AnnotationAssertion( "UBERON:0001062") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "anatomical entity") -SubClassOf( ) - -# Class: (multicellular anatomical structure) - -AnnotationAssertion(Annotation( "CARO:0010000") "An anatomical structure that has more than one cell as a part.") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion( "CARO:0010000") -AnnotationAssertion(Annotation( "FBbt:00100313") "multicellular structure") -AnnotationAssertion( "UBERON:0010000") -AnnotationAssertion( ) -AnnotationAssertion( ) -AnnotationAssertion(rdfs:label "multicellular anatomical structure") -SubClassOf( ) +# Class: () - -############################ -# Named Individuals -############################ - -# Individual: (example to be eventually removed) - -AnnotationAssertion( "example to be eventually removed"@en) -AnnotationAssertion(rdfs:label "example to be eventually removed"@en) - -# Individual: (metadata complete) - -AnnotationAssertion( "metadata complete"@en) -AnnotationAssertion( "Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete."@en) -AnnotationAssertion(rdfs:label "metadata complete"@en) - -# Individual: (organizational term) - -AnnotationAssertion( "organizational term"@en) -AnnotationAssertion( "Term created to ease viewing/sort terms for development purpose, and will not be included in a release"@en) -AnnotationAssertion(rdfs:label "organizational term"@en) - -# Individual: (ready for release) - -AnnotationAssertion( "ready for release"@en) -AnnotationAssertion( ) -AnnotationAssertion( "Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking \"ready_for_release\" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed \"ready_for_release\" will also derived from a chain of ancestor classes that are also \"ready_for_release.\""@en) -AnnotationAssertion(rdfs:label "ready for release"@en) - -# Individual: (metadata incomplete) - -AnnotationAssertion( "metadata incomplete"@en) -AnnotationAssertion( "Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors."@en) -AnnotationAssertion(rdfs:label "metadata incomplete"@en) - -# Individual: (uncurated) - -AnnotationAssertion( "uncurated"@en) -AnnotationAssertion( "Nothing done yet beyond assigning a unique class ID and proposing a preferred term."@en) -AnnotationAssertion(rdfs:label "uncurated"@en) - -# Individual: (pending final vetting) - -AnnotationAssertion( "pending final vetting"@en) -AnnotationAssertion( ) -AnnotationAssertion( "All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor."@en) -AnnotationAssertion(rdfs:label "pending final vetting"@en) - -# Individual: (to be replaced with external ontology term) - -AnnotationAssertion( "to be replaced with external ontology term"@en) -AnnotationAssertion( "Terms with this status should eventually replaced with a term from another ontology."@en) -AnnotationAssertion( "Alan Ruttenberg"@en) -AnnotationAssertion( "group:OBI"@en) -AnnotationAssertion(rdfs:label "to be replaced with external ontology term"@en) - -# Individual: (requires discussion) - -AnnotationAssertion( "requires discussion"@en) -AnnotationAssertion( ) -AnnotationAssertion( "A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues."@en) -AnnotationAssertion( "Alan Ruttenberg"@en) -AnnotationAssertion( "group:OBI"@en) -AnnotationAssertion(rdfs:label "requires discussion"@en) +SubClassOf( ObjectHasSelf()) SubClassOf(ObjectSomeValuesFrom( ) ObjectUnionOf(ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) ObjectSomeValuesFrom( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )))))