Class: AnatomicalEntity

A subcellular location, cell type or gross anatomical part

URI: biolink:AnatomicalEntity

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Identifier prefixes

• UBERON
• GO
• CL
• UMLS
• MESH
• NCIT
• EMAPA
• ZFA
• FBbt
• WBbt

Parents

• is_a: OrganismalEntity - A named entity that is either a part of an organism, a whole organism, population or clade of organisms, excluding chemical entities

Uses Mixins

• mixin: PhysicalEssence - Semantic mixin concept. Pertains to entities that have physical properties such as mass, volume, or charge.

Children

• Cell
• CellularComponent - A location in or around a cell
• GrossAnatomicalStructure
• PathologicalAnatomicalStructure - An anatomical structure with the potential of have an abnormal or deleterious effect at the subcellular, cellular, multicellular, or organismal level.

Referenced by class

• AnatomicalEntityToAnatomicalEntityAssociation object _1..1 AnatomicalEntity
• AnatomicalEntityToAnatomicalEntityAssociation subject _1..1 AnatomicalEntity
• AnatomicalEntityToAnatomicalEntityOntogenicAssociation object _1..1 AnatomicalEntity
• AnatomicalEntityToAnatomicalEntityOntogenicAssociation subject _1..1 AnatomicalEntity
• AnatomicalEntityToAnatomicalEntityPartOfAssociation object _1..1 AnatomicalEntity
• AnatomicalEntityToAnatomicalEntityPartOfAssociation subject _1..1 AnatomicalEntity
• ChemicalAffectsGeneAssociation anatomical context qualifier _0..1 AnatomicalEntity
• ChemicalAffectsGeneAssociation object context qualifier _0..1 AnatomicalEntity
• ChemicalAffectsGeneAssociation subject context qualifier _0..1 AnatomicalEntity
• ChemicalGeneInteractionAssociation anatomical context qualifier _0..1 AnatomicalEntity
• ChemicalGeneInteractionAssociation object context qualifier _0..1 AnatomicalEntity
• ChemicalGeneInteractionAssociation subject context qualifier _0..1 AnatomicalEntity
• DiseaseOrPhenotypicFeatureToLocationAssociation object _1..1 AnatomicalEntity
• GeneOrGeneProduct expressed in _0..* AnatomicalEntity
• Association expression site _0..1 AnatomicalEntity
• GeneToExpressionSiteAssociation object _1..1 AnatomicalEntity

Attributes

Inherited from entity:

• id _1..1
  • Description: A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI
  • Range: String
  • in subsets: (translator_minimal)
• iri _0..1
  • Description: An IRI for an entity. This is determined by the id using expansion rules.
  • Range: IriType
  • in subsets: (translator_minimal,samples)
• category _0..*
  • Description: Name of the high level ontology class in which this entity is categorized. Corresponds to the label for the biolink entity type class.
• In a neo4j database this MAY correspond to the neo4j label tag.
• In an RDF database it should be a biolink model class URI. This field is multi-valued. It should include values for ancestors of the biolink class; for example, a protein such as Shh would have category values biolink:Protein, biolink:GeneProduct, biolink:MolecularEntity, … In an RDF database, nodes will typically have an rdf:type triples. This can be to the most specific biolink class, or potentially to a class more specific than something in biolink. For example, a sequence feature f may have a rdf:type assertion to a SO class such as TF_binding_site, which is more specific than anything in biolink. Here we would have categories {biolink:GenomicEntity, biolink:MolecularEntity, biolink:NamedThing}
  • Range: CategoryType
  • in subsets: (translator_minimal)
• type _0..*
  • Range: String
• description _0..1
  • Description: a human-readable description of an entity
  • Range: NarrativeText
  • in subsets: (translator_minimal)
• has attribute _0..*
  • Description: connects any entity to an attribute
  • Range: Attribute
  • in subsets: (samples)

Inherited from gene product mixin:

• xref _0..*
  • Description: Alternate CURIEs for a thing
  • Range: Uriorcurie
  • in subsets: (translator_minimal)

Inherited from macromolecular machine mixin:

• name _0..1
  • Description: A human-readable name for an attribute or entity.
  • Range: LabelType
  • in subsets: (translator_minimal,samples)

Inherited from named thing:

• provided by _0..*
  • Description: The value in this node property represents the knowledge provider that created or assembled the node and all of its attributes. Used internally to represent how a particular node made its way into a knowledge provider or graph.
  • Range: String
• category _0..*
  • Description: Name of the high level ontology class in which this entity is categorized. Corresponds to the label for the biolink entity type class.
• In a neo4j database this MAY correspond to the neo4j label tag.
• In an RDF database it should be a biolink model class URI. This field is multi-valued. It should include values for ancestors of the biolink class; for example, a protein such as Shh would have category values biolink:Protein, biolink:GeneProduct, biolink:MolecularEntity, … In an RDF database, nodes will typically have an rdf:type triples. This can be to the most specific biolink class, or potentially to a class more specific than something in biolink. For example, a sequence feature f may have a rdf:type assertion to a SO class such as TF_binding_site, which is more specific than anything in biolink. Here we would have categories {biolink:GenomicEntity, biolink:MolecularEntity, biolink:NamedThing}
  • Range: CategoryType
  • in subsets: (translator_minimal)

Inherited from organismal entity:

• has attribute _0..*
  • Description: connects any entity to an attribute
  • Range: Attribute
  • in subsets: (samples)

Inherited from thing with taxon:

• in taxon _0..*
  • Description: connects an entity to its taxonomic classification. Only certain kinds of entities can be taxonomically classified; see ‘thing with taxon’
  • Range: OrganismTaxon
  • in subsets: (translator_minimal)

Other properties