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Class: 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)

URI: biolink:PairwiseGeneToGeneInteraction

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

Inheritance

Slots

Name Cardinality and Range Description Inheritance
subject 1..1
GeneOrGeneProduct		 the subject gene in the association Association
predicate 1..1
PredicateType		 interaction 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:PairwiseGeneToGeneInteraction
native biolink:PairwiseGeneToGeneInteraction
narrow dcid:ProteinProteinInteraction

LinkML Source

Direct

name: pairwise gene to gene interaction
description: 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)
from_schema: https://w3id.org/biolink/biolink-model
narrow_mappings:
- dcid:ProteinProteinInteraction
is_a: gene to gene association
slot_usage:
  predicate:
    name: predicate
    description: interaction relationship type
    domain_of:
    - predicate mapping
    - association
    subproperty_of: interacts with
    symmetric: true
defining_slots:
- subject
- predicate
- object