Skip to content

Class: VariantToGeneExpressionAssociation

An association between a variant and expression of a gene (i.e. e-QTL)

URI: biolink:VariantToGeneExpressionAssociation

classDiagram class VariantToGeneExpressionAssociation GeneExpressionMixin <|-- VariantToGeneExpressionAssociation VariantToGeneAssociation <|-- VariantToGeneExpressionAssociation VariantToGeneExpressionAssociation : aggregator_knowledge_source VariantToGeneExpressionAssociation : category VariantToGeneExpressionAssociation : description VariantToGeneExpressionAssociation : expression_site VariantToGeneExpressionAssociation --|> anatomical entity : expression_site VariantToGeneExpressionAssociation : has_attribute VariantToGeneExpressionAssociation --|> attribute : has_attribute VariantToGeneExpressionAssociation : has_evidence VariantToGeneExpressionAssociation --|> evidence type : has_evidence VariantToGeneExpressionAssociation : id VariantToGeneExpressionAssociation : iri VariantToGeneExpressionAssociation : knowledge_source VariantToGeneExpressionAssociation : name VariantToGeneExpressionAssociation : negated VariantToGeneExpressionAssociation : object VariantToGeneExpressionAssociation --|> gene : object VariantToGeneExpressionAssociation : object_category VariantToGeneExpressionAssociation --|> ontology class : object_category VariantToGeneExpressionAssociation : object_category_closure VariantToGeneExpressionAssociation --|> ontology class : object_category_closure VariantToGeneExpressionAssociation : object_closure VariantToGeneExpressionAssociation : object_label_closure VariantToGeneExpressionAssociation : object_namespace VariantToGeneExpressionAssociation : original_object VariantToGeneExpressionAssociation : original_predicate VariantToGeneExpressionAssociation : original_subject VariantToGeneExpressionAssociation : phenotypic_state VariantToGeneExpressionAssociation --|> disease or phenotypic feature : phenotypic_state VariantToGeneExpressionAssociation : predicate VariantToGeneExpressionAssociation : primary_knowledge_source VariantToGeneExpressionAssociation : publications VariantToGeneExpressionAssociation --|> publication : publications VariantToGeneExpressionAssociation : qualifiers VariantToGeneExpressionAssociation --|> ontology class : qualifiers VariantToGeneExpressionAssociation : quantifier_qualifier VariantToGeneExpressionAssociation --|> ontology class : quantifier_qualifier VariantToGeneExpressionAssociation : retrieval_source_ids VariantToGeneExpressionAssociation --|> retrieval source : retrieval_source_ids VariantToGeneExpressionAssociation : stage_qualifier VariantToGeneExpressionAssociation --|> life stage : stage_qualifier VariantToGeneExpressionAssociation : subject VariantToGeneExpressionAssociation --|> sequence variant : subject VariantToGeneExpressionAssociation : subject_category VariantToGeneExpressionAssociation --|> ontology class : subject_category VariantToGeneExpressionAssociation : subject_category_closure VariantToGeneExpressionAssociation --|> ontology class : subject_category_closure VariantToGeneExpressionAssociation : subject_closure VariantToGeneExpressionAssociation : subject_label_closure VariantToGeneExpressionAssociation : subject_namespace VariantToGeneExpressionAssociation : timepoint VariantToGeneExpressionAssociation : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
quantifier_qualifier 0..1
OntologyClass		 Optional quantitative value indicating degree of expression GeneExpressionMixin
expression_site 0..1
AnatomicalEntity		 location in which gene or protein expression takes place GeneExpressionMixin
stage_qualifier 0..1
LifeStage		 stage during which gene or protein expression of takes place GeneExpressionMixin
phenotypic_state 0..1
DiseaseOrPhenotypicFeature		 in experiments (e GeneExpressionMixin
subject 1..1
SequenceVariant		 a sequence variant in which the allele state is associated with some other en... Association
predicate 1..1
PredicateType		 A high-level grouping for the relationship type Association
object 1..1
Gene		 connects an association to the object of 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:VariantToGeneExpressionAssociation
native biolink:VariantToGeneExpressionAssociation

LinkML Source

Direct

name: variant to gene expression association
description: An association between a variant and expression of a gene (i.e. e-QTL)
from_schema: https://w3id.org/biolink/biolink-model
is_a: variant to gene association
mixins:
- gene expression mixin
slot_usage:
  predicate:
    name: predicate
    domain_of:
    - predicate mapping
    - association
    subproperty_of: affects
defining_slots:
- subject
- predicate
- object