biolink-model

Class: NamedThing

a databased entity or concept/class

URI: biolink:NamedThing

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Parents

• is_a: Entity - Root Biolink Model class for all things and informational relationships, real or imagined.

Children

• Activity - An activity is something that occurs over a period of time and acts upon or with entities; it may include consuming, processing, transforming, modifying, relocating, using, or generating entities.
• AdministrativeEntity
• Attribute - A property or characteristic of an entity. For example, an apple may have properties such as color, shape, age, crispiness. An environmental sample may have attributes such as depth, lat, long, material.
• BiologicalEntity
• ChemicalEntity - A chemical entity is a physical entity that pertains to chemistry or biochemistry.
• ClinicalEntity - Any entity or process that exists in the clinical domain and outside the biological realm. Diseases are placed under biological entities
• Device - A thing made or adapted for a particular purpose, especially a piece of mechanical or electronic equipment
• DiagnosticAid - A device or substance used to help diagnose disease or injury
• Event - Something that happens at a given place and time.
• InformationContentEntity - a piece of information that typically describes some topic of discourse or is used as support.
• 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.
• Phenomenon - a fact or situation that is observed to exist or happen, especially one whose cause or explanation is in question
• PhysicalEntity - An entity that has material reality (a.k.a. physical essence).
• PlanetaryEntity - Any entity or process that exists at the level of the whole planet
• Procedure - A series of actions conducted in a certain order or manner
• Treatment - A treatment is targeted at a disease or phenotype and may involve multiple drug ‘exposures’, medical devices and/or procedures

Referenced by class

• BiologicalProcessOrActivity actively involves _0..* NamedThing
• NamedThing affected by _0..* NamedThing
• NamedThing affects _0..* NamedThing
• NamedThing affects risk for _0..* NamedThing
• NamedThing amount or activity decreased by _0..* NamedThing
• NamedThing amount or activity increased by _0..* NamedThing
• NamedThing assesses _0..* NamedThing
• NamedThing associated with _0..* NamedThing
• NamedThing associated with decreased likelihood of _0..* NamedThing
• NamedThing associated with increased likelihood of _0..* NamedThing
• NamedThing associated with likelihood of _0..* NamedThing
• NamedThing binds _0..* NamedThing
• NamedThing broad match _0..* NamedThing
• Occurrent can be carried out by _0..* NamedThing
• NamedThing caused by _0..* NamedThing
• NamedThing causes _0..* NamedThing
• ChemicalEntityAssessesNamedThingAssociation object _1..1 NamedThing
• NamedThing chemically similar to _0..* NamedThing
• NamedThing close match _0..* NamedThing
• NamedThing coexists with _0..* NamedThing
• NamedThing colocalizes with _0..* NamedThing
• NamedThing completed by _0..* NamedThing
• NamedThing composed primarily of _0..* NamedThing
• NamedThing consumed by _0..* NamedThing
• NamedThing consumes _0..* NamedThing
• NamedThing contains process _0..* NamedThing
• NamedThing contributes to _0..* NamedThing
• NamedThing contribution from _0..* NamedThing
• NamedThing correlated with _0..* NamedThing
• NamedThing decreased amount in _0..* NamedThing
• NamedThing decreased likelihood associated with _0..* NamedThing
• NamedThing decreases amount or activity of _0..* NamedThing
• NamedThing derives from _0..* NamedThing
• NamedThing derives into _0..* NamedThing
• NamedThing develops from _0..* NamedThing
• NamedThing develops into _0..* NamedThing
• NamedThing directly physically interacts with _0..* NamedThing
• NamedThing disease has basis in _0..* NamedThing
• NamedThing disease has location _0..* NamedThing
• NamedThing disrupted by _0..* NamedThing
• NamedThing disrupts _0..* NamedThing
• NamedThing exact match _0..* NamedThing
• NamedThing genetic association _0..* NamedThing
• NamedThing genetically associated with _0..* NamedThing
• GenotypeToDiseaseAssociation object _1..1 NamedThing
• GenotypeToDiseaseAssociation subject _1..1 NamedThing
• NamedThing has completed _0..* NamedThing
• NamedThing has decreased amount _0..* NamedThing
• NamedThing has increased amount _0..* NamedThing
• BiologicalProcessOrActivity has input _0..* NamedThing
• Disease has manifestation _0..* NamedThing
• NamedThing has member _0..* NamedThing
• NamedThing has not completed _0..* NamedThing
• BiologicalProcessOrActivity has output _0..* NamedThing
• NamedThing has part _0..* NamedThing
• NamedThing has plasma membrane part _0..* NamedThing
• NamedThing has predisposing factor _0..* NamedThing
• Attribute has qualitative value _0..1 NamedThing
• NamedThing has variant part _0..* NamedThing
• NamedThing homologous to _0..* NamedThing
• NamedThing in linkage disequilibrium with _0..* NamedThing
• NamedThing increased amount of _0..* NamedThing
• NamedThing increased likelihood associated with _0..* NamedThing
• NamedThing increases amount or activity of _0..* NamedThing
• NamedThing indirectly physically interacts with _0..* NamedThing
• InformationContentEntityToNamedThingAssociation object _1..1 NamedThing
• InformationContentEntityToNamedThingAssociation subject _1..1 NamedThing
• NamedThing interacts with _0..* NamedThing
• DiseaseOrPhenotypicFeature is ameliorated by _0..* NamedThing
• NamedThing is assessed by _0..* NamedThing
• OntologyClass is molecular consequence of _0..* NamedThing
• NamedThing lacks part _0..* NamedThing
• NamedThing likelihood associated with _0..* NamedThing
• NamedThing located in _0..* NamedThing
• NamedThing location of _0..* NamedThing
• NamedThing location of disease _0..* NamedThing
• MacromolecularMachineToEntityAssociationMixin subject _1..1 NamedThing
• MaterialSampleDerivationAssociation object _1..1 NamedThing
• NamedThing member of _0..* NamedThing
• NamedThing mentioned by _0..* NamedThing
• NamedThing mentions _0..* NamedThing
• NamedThing missing from _0..* NamedThing
• NamedThing model of _0..* NamedThing
• ModelToDiseaseAssociationMixin subject _1..1 NamedThing
• NamedThing models _0..* NamedThing
• NamedThing narrow match _0..* NamedThing
• NamedThing negatively correlated with _0..* NamedThing
• NamedThing not completed by _0..* NamedThing
• Association object _1..1 NamedThing
• NamedThing occurs in _0..* NamedThing
• NamedThing occurs in disease _0..* NamedThing
• NamedThing occurs together in literature with _0..* NamedThing
• NamedThing opposite of _0..* NamedThing
• OrganismTaxonToEnvironmentAssociation object _1..1 NamedThing
• NamedThing orthologous to _0..* NamedThing
• NamedThing overlaps _0..* NamedThing
• NamedThing paralogous to _0..* NamedThing
• NamedThing part of _0..* NamedThing
• NamedThing physically interacts with _0..* NamedThing
• NamedThing plasma membrane part of _0..* NamedThing
• NamedThing positively correlated with _0..* NamedThing
• NamedThing predisposes _0..* NamedThing
• NamedThing prevented by _0..* NamedThing
• NamedThing prevents _0..* NamedThing
• NamedThing primarily composed of _0..* NamedThing
• NamedThing produced by _0..* NamedThing
• NamedThing produces _0..* NamedThing
• NamedThing related condition _0..* NamedThing
• NamedThing related to _0..* NamedThing
• NamedThing related to at concept level _0..* NamedThing
• NamedThing related to at instance level _0..* NamedThing
• ChemicalEntity resistance associated with _0..* NamedThing
• NamedThing risk affected by _0..* NamedThing
• NamedThing same as _0..* NamedThing
• ChemicalEntity sensitivity associated with _0..* NamedThing
• NamedThing similar to _0..* NamedThing
• Association subject _1..1 NamedThing
• NamedThing variant part of _0..* NamedThing
• VariantToDiseaseAssociation object _1..1 NamedThing
• VariantToDiseaseAssociation subject _1..1 NamedThing
• NamedThing xenologous to _0..* NamedThing

Attributes

Own

• full name _0..1
  • Description: a long-form human readable name for a thing
  • Range: LabelType
• 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)
• 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

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:

• synonym _0..*
  • Description: Alternate human-readable names for a thing
  • Range: LabelType
  • in subsets: (translator_minimal)
• xref _0..*
  • Description: A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references.
  • 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)

Domain for slot:

• full name _0..1
  • Description: a long-form human readable name for a thing
  • Range: LabelType
• 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)
• 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
• synonym _0..*
  • Description: Alternate human-readable names for a thing
  • Range: LabelType
  • in subsets: (translator_minimal)
• xref _0..*
  • Description: A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references.
  • Range: Uriorcurie
  • in subsets: (translator_minimal)

Other properties

Exact Mappings:		BFO:0000001
		WIKIDATA:Q35120
		UMLSSG:OBJC
		STY:T071
		dcid:Thing

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