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Class: 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)

URI: biolink:GeneToGeneHomologyAssociation

classDiagram class GeneToGeneHomologyAssociation GeneToGeneAssociation <|-- GeneToGeneHomologyAssociation GeneToGeneHomologyAssociation : aggregator_knowledge_source GeneToGeneHomologyAssociation : category GeneToGeneHomologyAssociation : description GeneToGeneHomologyAssociation : has_attribute GeneToGeneHomologyAssociation --|> attribute : has_attribute GeneToGeneHomologyAssociation : has_evidence GeneToGeneHomologyAssociation --|> evidence type : has_evidence GeneToGeneHomologyAssociation : id GeneToGeneHomologyAssociation : iri GeneToGeneHomologyAssociation : knowledge_source GeneToGeneHomologyAssociation : name GeneToGeneHomologyAssociation : negated GeneToGeneHomologyAssociation : object GeneToGeneHomologyAssociation --|> gene or gene product : object GeneToGeneHomologyAssociation : object_category GeneToGeneHomologyAssociation --|> ontology class : object_category GeneToGeneHomologyAssociation : object_category_closure GeneToGeneHomologyAssociation --|> ontology class : object_category_closure GeneToGeneHomologyAssociation : object_closure GeneToGeneHomologyAssociation : object_label_closure GeneToGeneHomologyAssociation : object_namespace GeneToGeneHomologyAssociation : original_object GeneToGeneHomologyAssociation : original_predicate GeneToGeneHomologyAssociation : original_subject GeneToGeneHomologyAssociation : predicate GeneToGeneHomologyAssociation : primary_knowledge_source GeneToGeneHomologyAssociation : publications GeneToGeneHomologyAssociation --|> publication : publications GeneToGeneHomologyAssociation : qualifiers GeneToGeneHomologyAssociation --|> ontology class : qualifiers GeneToGeneHomologyAssociation : retrieval_source_ids GeneToGeneHomologyAssociation --|> retrieval source : retrieval_source_ids GeneToGeneHomologyAssociation : subject GeneToGeneHomologyAssociation --|> gene or gene product : subject GeneToGeneHomologyAssociation : subject_category GeneToGeneHomologyAssociation --|> ontology class : subject_category GeneToGeneHomologyAssociation : subject_category_closure GeneToGeneHomologyAssociation --|> ontology class : subject_category_closure GeneToGeneHomologyAssociation : subject_closure GeneToGeneHomologyAssociation : subject_label_closure GeneToGeneHomologyAssociation : subject_namespace GeneToGeneHomologyAssociation : timepoint GeneToGeneHomologyAssociation : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
subject 1..1
GeneOrGeneProduct		 the subject gene in the association Association
predicate 1..1
PredicateType		 homology relationship type Association
object 1..1
GeneOrGeneProduct		 the object gene in the association Association
negated 0..1
Boolean		 if set to true, then the association is negated i Association
qualifiers 0..*
OntologyClass		 connects an association to qualifiers that modify or qualify the meaning of t... Association
publications 0..*
Publication		 One or more publications that report the statement expressed in an Associati... Association
has_evidence 0..*
EvidenceType		 connects an association to an instance of supporting evidence Association
knowledge_source 0..1
String		 An Information Resource from which the knowledge expressed in an Association ... Association
primary_knowledge_source 0..1
String		 The most upstream source of the knowledge expressed in an Association that an... Association
aggregator_knowledge_source 0..*
String		 An intermediate aggregator resource from which knowledge expressed in an Asso... Association
timepoint 0..1
TimeType		 a point in time Association
original_subject 0..1
String		 used to hold the original subject of a relation (or predicate) that an extern... Association
original_predicate 0..1
Uriorcurie		 used to hold the original relation/predicate that an external knowledge sourc... Association
original_object 0..1
String		 used to hold the original object of a relation (or predicate) that an externa... Association
subject_category 0..1
OntologyClass		 Used to hold the biolink class/category of an association Association
object_category 0..1
OntologyClass		 Used to hold the biolink class/category of an association Association
subject_closure 0..*
String		 Used to hold the subject closure of an association Association
object_closure 0..*
String		 Used to hold the object closure of an association Association
subject_category_closure 0..*
OntologyClass		 Used to hold the subject category closure of an association Association
object_category_closure 0..*
OntologyClass		 Used to hold the object category closure of an association Association
subject_namespace 0..1
String		 Used to hold the subject namespace of an association Association
object_namespace 0..1
String		 Used to hold the object namespace of an association Association
subject_label_closure 0..*
String		 Used to hold the subject label closure of an association Association
object_label_closure 0..*
String		 Used to hold the object label closure of an association Association
retrieval_source_ids 0..*
RetrievalSource		 A list of retrieval sources that served as a source of knowledge expressed in... Association
id 1..1
String		 A unique identifier for an entity Entity
iri 0..1
IriType		 An IRI for an entity Entity
category 0..*
CategoryType		 Name of the high level ontology class in which this entity is categorized Entity
type 0..*
String		 rdf:type of biolink:Association should be fixed at rdf:Statement Entity
name 0..1
LabelType		 A human-readable name for an attribute or entity Entity
description 0..1
NarrativeText		 a human-readable description of an entity Entity
has_attribute 0..*
Attribute		 connects any entity to an attribute Entity

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/biolink/biolink-model

Mappings

Mapping Type Mapped Value
self biolink:GeneToGeneHomologyAssociation
native biolink:GeneToGeneHomologyAssociation

LinkML Source

Direct

name: gene to gene homology association
description: 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)
from_schema: https://w3id.org/biolink/biolink-model
is_a: gene to gene association
slot_usage:
  subject:
    name: subject
    domain_of:
    - association
    range: gene or gene product
  predicate:
    name: predicate
    description: homology relationship type
    domain_of:
    - predicate mapping
    - association
    subproperty_of: homologous to
    symmetric: true
  object:
    name: object
    domain_of:
    - association
    range: gene or gene product
defining_slots:
- subject
- predicate
- object