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Class: ChemicalAffectsGeneAssociation

Describes an effect that a chemical has on a gene or gene product (e.g. an impact of on its abundance, activity,localization, processing, expression, etc.)

URI: biolink:ChemicalAffectsGeneAssociation

classDiagram class ChemicalAffectsGeneAssociation Association <|-- ChemicalAffectsGeneAssociation ChemicalAffectsGeneAssociation : aggregator_knowledge_source ChemicalAffectsGeneAssociation : anatomical_context_qualifier ChemicalAffectsGeneAssociation --|> anatomical entity : anatomical_context_qualifier ChemicalAffectsGeneAssociation : category ChemicalAffectsGeneAssociation : causal_mechanism_qualifier ChemicalAffectsGeneAssociation --|> CausalMechanismQualifierEnum : causal_mechanism_qualifier ChemicalAffectsGeneAssociation : description ChemicalAffectsGeneAssociation : has_attribute ChemicalAffectsGeneAssociation --|> attribute : has_attribute ChemicalAffectsGeneAssociation : has_evidence ChemicalAffectsGeneAssociation --|> evidence type : has_evidence ChemicalAffectsGeneAssociation : id ChemicalAffectsGeneAssociation : iri ChemicalAffectsGeneAssociation : knowledge_source ChemicalAffectsGeneAssociation : name ChemicalAffectsGeneAssociation : negated ChemicalAffectsGeneAssociation : object ChemicalAffectsGeneAssociation --|> gene or gene product : object ChemicalAffectsGeneAssociation : object_aspect_qualifier ChemicalAffectsGeneAssociation --|> GeneOrGeneProductOrChemicalEntityAspectEnum : object_aspect_qualifier ChemicalAffectsGeneAssociation : object_category ChemicalAffectsGeneAssociation --|> ontology class : object_category ChemicalAffectsGeneAssociation : object_category_closure ChemicalAffectsGeneAssociation --|> ontology class : object_category_closure ChemicalAffectsGeneAssociation : object_closure ChemicalAffectsGeneAssociation : object_context_qualifier ChemicalAffectsGeneAssociation --|> anatomical entity : object_context_qualifier ChemicalAffectsGeneAssociation : object_form_or_variant_qualifier ChemicalAffectsGeneAssociation --|> ChemicalOrGeneOrGeneProductFormOrVariantEnum : object_form_or_variant_qualifier ChemicalAffectsGeneAssociation : object_label_closure ChemicalAffectsGeneAssociation : object_namespace ChemicalAffectsGeneAssociation : object_part_qualifier ChemicalAffectsGeneAssociation --|> GeneOrGeneProductOrChemicalPartQualifierEnum : object_part_qualifier ChemicalAffectsGeneAssociation : original_object ChemicalAffectsGeneAssociation : original_predicate ChemicalAffectsGeneAssociation : original_subject ChemicalAffectsGeneAssociation : predicate ChemicalAffectsGeneAssociation : primary_knowledge_source ChemicalAffectsGeneAssociation : publications ChemicalAffectsGeneAssociation --|> publication : publications ChemicalAffectsGeneAssociation : qualified_predicate ChemicalAffectsGeneAssociation : qualifiers ChemicalAffectsGeneAssociation --|> ontology class : qualifiers ChemicalAffectsGeneAssociation : retrieval_source_ids ChemicalAffectsGeneAssociation --|> retrieval source : retrieval_source_ids ChemicalAffectsGeneAssociation : subject ChemicalAffectsGeneAssociation --|> chemical entity : subject ChemicalAffectsGeneAssociation : subject_aspect_qualifier ChemicalAffectsGeneAssociation --|> GeneOrGeneProductOrChemicalEntityAspectEnum : subject_aspect_qualifier ChemicalAffectsGeneAssociation : subject_category ChemicalAffectsGeneAssociation --|> ontology class : subject_category ChemicalAffectsGeneAssociation : subject_category_closure ChemicalAffectsGeneAssociation --|> ontology class : subject_category_closure ChemicalAffectsGeneAssociation : subject_closure ChemicalAffectsGeneAssociation : subject_context_qualifier ChemicalAffectsGeneAssociation --|> anatomical entity : subject_context_qualifier ChemicalAffectsGeneAssociation : subject_derivative_qualifier ChemicalAffectsGeneAssociation --|> ChemicalEntityDerivativeEnum : subject_derivative_qualifier ChemicalAffectsGeneAssociation : subject_direction_qualifier ChemicalAffectsGeneAssociation --|> DirectionQualifierEnum : subject_direction_qualifier ChemicalAffectsGeneAssociation : subject_form_or_variant_qualifier ChemicalAffectsGeneAssociation --|> ChemicalOrGeneOrGeneProductFormOrVariantEnum : subject_form_or_variant_qualifier ChemicalAffectsGeneAssociation : subject_label_closure ChemicalAffectsGeneAssociation : subject_namespace ChemicalAffectsGeneAssociation : subject_part_qualifier ChemicalAffectsGeneAssociation --|> GeneOrGeneProductOrChemicalPartQualifierEnum : subject_part_qualifier ChemicalAffectsGeneAssociation : timepoint ChemicalAffectsGeneAssociation : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
subject_form_or_variant_qualifier 0..1
ChemicalOrGeneOrGeneProductFormOrVariantEnum		 direct
subject_part_qualifier 0..1
GeneOrGeneProductOrChemicalPartQualifierEnum		 direct
subject_derivative_qualifier 0..1
ChemicalEntityDerivativeEnum		 direct
subject_aspect_qualifier 0..1
GeneOrGeneProductOrChemicalEntityAspectEnum		 direct
subject_context_qualifier 0..1
AnatomicalEntity		 direct
subject_direction_qualifier 0..1
DirectionQualifierEnum		 direct
object_form_or_variant_qualifier 0..1
ChemicalOrGeneOrGeneProductFormOrVariantEnum		 direct
object_part_qualifier 0..1
GeneOrGeneProductOrChemicalPartQualifierEnum		 direct
object_aspect_qualifier 0..1
GeneOrGeneProductOrChemicalEntityAspectEnum		 direct
object_context_qualifier 0..1
AnatomicalEntity		 direct
causal_mechanism_qualifier 0..1
CausalMechanismQualifierEnum		 A statement qualifier representing a type of molecular control mechanism thro... direct
anatomical_context_qualifier 0..1
AnatomicalEntity		 A statement qualifier representing an anatomical location where an relationsh... direct
qualified_predicate 0..1
String		 Predicate to be used in an association when subject and object qualifiers are... direct
subject 1..1
ChemicalEntity		 connects an association to the subject of the association Association
predicate 1..1
PredicateType		 A high-level grouping for the relationship type Association
object 1..1
GeneOrGeneProduct		 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:ChemicalAffectsGeneAssociation
native biolink:ChemicalAffectsGeneAssociation

LinkML Source

Direct

name: chemical affects gene association
description: Describes an effect that a chemical has on a gene or gene product (e.g.
  an impact of on its abundance, activity,localization, processing, expression, etc.)
from_schema: https://w3id.org/biolink/biolink-model
is_a: association
slots:
- subject form or variant qualifier
- subject part qualifier
- subject derivative qualifier
- subject aspect qualifier
- subject context qualifier
- subject direction qualifier
- object form or variant qualifier
- object part qualifier
- object aspect qualifier
- object context qualifier
- causal mechanism qualifier
- anatomical context qualifier
- qualified predicate
slot_usage:
  subject:
    name: subject
    domain_of:
    - association
    range: chemical entity
  subject form or variant qualifier:
    name: subject form or variant qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    - gene has variant that contributes to disease association
    range: ChemicalOrGeneOrGeneProductFormOrVariantEnum
  subject part qualifier:
    name: subject part qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: GeneOrGeneProductOrChemicalPartQualifierEnum
  subject derivative qualifier:
    name: subject derivative qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: ChemicalEntityDerivativeEnum
  subject aspect qualifier:
    name: subject aspect qualifier
    domain_of:
    - predicate mapping
    - chemical affects gene association
    - gene affects chemical association
    - gene to disease or phenotypic feature association
    range: GeneOrGeneProductOrChemicalEntityAspectEnum
  subject context qualifier:
    name: subject context qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: anatomical entity
  subject direction qualifier:
    name: subject direction qualifier
    domain_of:
    - predicate mapping
    - chemical affects gene association
    - gene affects chemical association
    range: DirectionQualifierEnum
  predicate:
    name: predicate
    domain_of:
    - predicate mapping
    - association
    subproperty_of: affects
  qualified predicate:
    name: qualified predicate
    domain_of:
    - predicate mapping
    - chemical affects gene association
    - gene affects chemical association
    subproperty_of: causes
  object:
    name: object
    domain_of:
    - association
    range: gene or gene product
  object form or variant qualifier:
    name: object form or variant qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: ChemicalOrGeneOrGeneProductFormOrVariantEnum
  object part qualifier:
    name: object part qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: GeneOrGeneProductOrChemicalPartQualifierEnum
  object aspect qualifier:
    name: object aspect qualifier
    domain_of:
    - predicate mapping
    - chemical affects gene association
    - gene affects chemical association
    range: GeneOrGeneProductOrChemicalEntityAspectEnum
  object context qualifier:
    name: object context qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: anatomical entity
  object direction qualifier:
    name: object direction qualifier
    range: DirectionQualifierEnum
  causal mechanism qualifier:
    name: causal mechanism qualifier
    domain_of:
    - predicate mapping
    - chemical affects gene association
    - gene affects chemical association
    range: CausalMechanismQualifierEnum
  anatomical context qualifier:
    name: anatomical context qualifier
    domain_of:
    - predicate mapping
    - chemical gene interaction association
    - chemical affects gene association
    - gene affects chemical association
    range: anatomical entity
  species context qualifier:
    name: species context qualifier
    range: organism taxon