Class: OrganismTaxon
A classification of a set of organisms. Example instances: NCBITaxon:9606 (Homo sapiens), NCBITaxon:2 (Bacteria). Can also be used to represent strains or subspecies.
Identifier prefixes
- NCBITaxon
- MESH
Parents
- is_a: OntologyClass - a concept or class in an ontology, vocabulary or thesaurus
Children
- BioticExposure - An external biotic exposure is an intake of (sometimes pathological) biological organisms (including viruses).
Referenced by class
- ThingWithTaxon in taxon 0..* OrganismTaxon
- OrganismTaxonToOrganismTaxonAssociation organism taxon to organism taxon association➞object REQ OrganismTaxon
- OrganismTaxonToOrganismTaxonAssociation organism taxon to organism taxon association➞subject REQ OrganismTaxon
- OrganismTaxonToOrganismTaxonInteraction organism taxon to organism taxon interaction➞object REQ OrganismTaxon
- OrganismTaxonToOrganismTaxonInteraction organism taxon to organism taxon interaction➞subject REQ OrganismTaxon
- OrganismTaxonToOrganismTaxonSpecialization organism taxon to organism taxon specialization➞object REQ OrganismTaxon
- OrganismTaxonToOrganismTaxonSpecialization organism taxon to organism taxon specialization➞subject REQ OrganismTaxon
- OrganismTaxon organism taxon➞subclass of 0..* OrganismTaxon
Attributes
Own
- organism taxon➞has taxonomic rank OPT
- range: TaxonomicRank
- organism taxon➞subclass of 0..*
- Description: subclass of holds between two taxa, e.g. human subclass of mammal
- range: OrganismTaxon
Inherited from entity:
- id REQ
- 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 OPT
- Description: An IRI for an entity. This is determined by the id using expansion rules.
- range: IriType
- in subsets: (translator_minimal,samples)
- category 1..*
- 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
bl:Protein
,bl:GeneProduct
,bl: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 featuref
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 {bl:GenomicEntity, bl:MolecularEntity, bl:NamedThing}- range: CategoryType
- in subsets: (translator_minimal)
- type OPT
- range: String
- description OPT
- Description: a human-readable description of an entity
- range: NarrativeText
- in subsets: (translator_minimal)
- source OPT
- Description: a lightweight analog to the association class ‘has provider’ slot, which is the string name, or the authoritative (i.e. database) namespace, designating the origin of the entity to which the slot belongs.
- range: LabelType
- in subsets: (translator_minimal)
- provided by 0..*
- Description: connects an association to the agent (person, organization or group) that provided it
- range: Agent
- has attribute 0..*
- Description: connects any entity to an attribute
- range: Attribute
- in subsets: (samples)
Inherited from macromolecular machine mixin:
- macromolecular machine mixin➞name OPT
- Description: genes are typically designated by a short symbol and a full name. We map the symbol to the default display name and use an additional slot for full name
- range: SymbolType
Inherited from named thing:
- named thing➞category 1..*
- range: NamedThing
Domain for slot:
- organism taxon➞has taxonomic rank OPT
- range: TaxonomicRank
- organism taxon➞subclass of 0..*
- Description: subclass of holds between two taxa, e.g. human subclass of mammal
- range: OrganismTaxon
Other properties
Aliases: | taxon | |
taxonomic classification | ||
In Subsets: | model_organism_database | |
Exact Mappings: | WIKIDATA:Q16521 | |
Narrow Mappings: | UMLSSC:T005 | |
UMLSST:virs | ||
UMLSSC:T007 | ||
UMLSST:bact | ||
UMLSSC:T194 | ||
UMLSST:arch | ||
UMLSSC:T204 | ||
UMLSST:euka | ||
UMLSSC:T002 | ||
UMLSST:plnt | ||
UMLSSC:T004 | ||
UMLSST:fngs | ||
UMLSSC:T008 | ||
UMLSST:anim | ||
UMLSSC:T010 | ||
UMLSST:vtbt | ||
UMLSSC:T011 | ||
UMLSST:amph | ||
UMLSSC:T012 | ||
UMLSST:bird | ||
UMLSSC:T013 | ||
UMLSST:fish | ||
UMLSSC:T014 | ||
UMLSST:rept | ||
UMLSSC:T015 | ||
UMLSST:mamm | ||
UMLSSC:T016 | ||
UMLSST:humn |