Link

Class: GeneToGeneAssociation

abstract parent class for different kinds of gene-gene or gene product to gene product relationships. Includes homology and interaction.

URI: biolink:GeneToGeneAssociation


img


Parents

  • is_a: Association - A typed association between two entities, supported by evidence

Children

  • GeneToGeneCoexpressionAssociation - Indicates that two genes are co-expressed, generally under the same conditions.
  • GeneToGeneHomologyAssociation - A homology association between two genes. May be orthology (in which case the species of subject and object should differ) or paralogy (in which case the species may be the same)
  • PairwiseGeneToGeneInteraction - An interaction between two genes or two gene products. May be physical (e.g. protein binding) or genetic (between genes). May be symmetric (e.g. protein interaction) or directed (e.g. phosphorylation)

Referenced by class

Attributes

Own

Inherited from association:

  • subject REQ
    • Description: connects an association to the subject of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object.
    • range: NamedThing
  • predicate REQ
    • Description: A high-level grouping for the relationship type. AKA minimal predicate. This is analogous to category for nodes.
    • range: PredicateType
  • object REQ
    • Description: connects an association to the object of the association. For example, in a gene-to-phenotype association, the gene is subject and phenotype is object.
    • range: NamedThing
  • relation REQ
    • Description: The relation which describes an association between a subject and an object in a more granular manner. Usually this is a term from Relation Ontology, but it can be any edge CURIE.
    • range: Uriorcurie
  • negated OPT
    • Description: if set to true, then the association is negated i.e. is not true
    • range: Boolean
  • qualifiers 0..*
    • Description: connects an association to qualifiers that modify or qualify the meaning of that association
    • range: OntologyClass
  • publications 0..*
    • Description: connects an association to publications supporting the association
    • range: Publication
  • association➞type OPT
    • Description: rdf:type of biolink:Association should be fixed at rdf:Statement
    • range: String
  • association➞category 0..*

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 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}
  • type OPT
  • 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

Domain for slot:

Other properties

     
Aliases:   molecular or genetic interaction