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Class: TranscriptionFactorRegulationAssociation

Optional association for TranscriptionFactor -> Gene when direction, confidence, tissue/cell context, or assay evidence are needed. Materializes to transcription_factor_regulates_gene.

URI: alskb:TranscriptionFactorRegulationAssociation

 classDiagram
    class TranscriptionFactorRegulationAssociation
    click TranscriptionFactorRegulationAssociation href "../TranscriptionFactorRegulationAssociation/"
      Association <|-- TranscriptionFactorRegulationAssociation
        click Association href "../Association/"

      TranscriptionFactorRegulationAssociation : association_id

      TranscriptionFactorRegulationAssociation : association_label

      TranscriptionFactorRegulationAssociation : confidence

      TranscriptionFactorRegulationAssociation : confidence_level

      TranscriptionFactorRegulationAssociation : evidence_source

      TranscriptionFactorRegulationAssociation : evidence_type

      TranscriptionFactorRegulationAssociation : ingest_date

      TranscriptionFactorRegulationAssociation : last_updated

      TranscriptionFactorRegulationAssociation : object

      TranscriptionFactorRegulationAssociation : predicate

      TranscriptionFactorRegulationAssociation : regulation_type

      TranscriptionFactorRegulationAssociation : source

      TranscriptionFactorRegulationAssociation : source_version

      TranscriptionFactorRegulationAssociation : subject

      TranscriptionFactorRegulationAssociation : target_gene





        TranscriptionFactorRegulationAssociation --> "1" Gene : target_gene
        click Gene href "../Gene/"



      TranscriptionFactorRegulationAssociation : tissue_or_cell_type

      TranscriptionFactorRegulationAssociation : transcription_factor





        TranscriptionFactorRegulationAssociation --> "1" TranscriptionFactor : transcription_factor
        click TranscriptionFactor href "../TranscriptionFactor/"

Inheritance

Slots

Name Cardinality and Range Description Inheritance
transcription_factor 1
TranscriptionFactor		 direct
target_gene 1
Gene		 direct
predicate 0..1
String		 direct
regulation_type 0..1
String		 activation, repression, bidirectional, context_dependent, or unknown direct
confidence_level 0..1
String		 Source-specific confidence level such as DoRothEA A-D direct
tissue_or_cell_type 0..1
String		 Tissue or cell type context for the regulatory relationship direct
association_id 0..1
Uriorcurie		 Stable identifier for the association record Association
association_label 0..1
String		 Human-readable summary of the association Association
subject 1
String		 Subject entity IRI or CURIE used to materialize a direct edge Association, Relationship
object 1
String		 Object entity IRI or CURIE used to materialize a direct edge Association, Relationship
source 0..1
String		 Data source for this association Association, Relationship
source_version 0..1
String		 Data source version or release date Association
evidence_type 0..1
String		 Type of supporting evidence Association, Relationship
evidence_source 0..1
String		 Publication, study, database record, or extraction artifact supporting the as... Association, Relationship
confidence 0..1
String		 Normalized confidence score from 0 to 1 Association, Relationship
ingest_date 0..1
String		 Date this association was ingested Association, Relationship
last_updated 0..1
String		 Date this association was last modified Association

Identifier and Mapping Information

Schema Source

  • from schema: https://cair2015.github.io/als-kg

Mappings

Mapping Type Mapped Value
self alskb:TranscriptionFactorRegulationAssociation
native alskb:TranscriptionFactorRegulationAssociation

LinkML Source

Direct

name: TranscriptionFactorRegulationAssociation
description: Optional association for TranscriptionFactor -> Gene when direction,
  confidence, tissue/cell context, or assay evidence are needed. Materializes to transcription_factor_regulates_gene.
from_schema: https://cair2015.github.io/als-kg
is_a: Association
attributes:
  transcription_factor:
    name: transcription_factor
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: TranscriptionFactor
    required: true
  target_gene:
    name: target_gene
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: Gene
    required: true
  predicate:
    name: predicate
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdf:predicate
    ifabsent: alskb:transcription_factor_regulates_gene
    domain_of:
    - Relationship
    - Association
    - DiseasePhenotypeAssociation
    - GeneDiseaseAssociation
    - VariantDiseaseAssociation
    - VariantProteinEffectAssociation
    - ProteinProteinInteractionAssociation
    - ProteinPathwayAssociation
    - DrugTargetAssociation
    - DrugDiseaseTherapeuticAssociation
    - ExposureDiseaseAssociation
    - TranscriptionFactorRegulationAssociation
    - GeneExpressionAssociation
    - DiseaseDiseaseAssociation
  regulation_type:
    name: regulation_type
    description: activation, repression, bidirectional, context_dependent, or unknown
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - TranscriptionFactorRegulationAssociation
  confidence_level:
    name: confidence_level
    description: Source-specific confidence level such as DoRothEA A-D
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - TranscriptionFactorRegulationAssociation
  tissue_or_cell_type:
    name: tissue_or_cell_type
    description: Tissue or cell type context for the regulatory relationship
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - TranscriptionFactorRegulationAssociation
    - GeneExpressionAssociation

Induced

name: TranscriptionFactorRegulationAssociation
description: Optional association for TranscriptionFactor -> Gene when direction,
  confidence, tissue/cell context, or assay evidence are needed. Materializes to transcription_factor_regulates_gene.
from_schema: https://cair2015.github.io/als-kg
is_a: Association
attributes:
  transcription_factor:
    name: transcription_factor
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: transcription_factor
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: TranscriptionFactor
    required: true
  target_gene:
    name: target_gene
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: target_gene
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: Gene
    required: true
  predicate:
    name: predicate
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdf:predicate
    ifabsent: alskb:transcription_factor_regulates_gene
    alias: predicate
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    - DiseasePhenotypeAssociation
    - GeneDiseaseAssociation
    - VariantDiseaseAssociation
    - VariantProteinEffectAssociation
    - ProteinProteinInteractionAssociation
    - ProteinPathwayAssociation
    - DrugTargetAssociation
    - DrugDiseaseTherapeuticAssociation
    - ExposureDiseaseAssociation
    - TranscriptionFactorRegulationAssociation
    - GeneExpressionAssociation
    - DiseaseDiseaseAssociation
    range: string
  regulation_type:
    name: regulation_type
    description: activation, repression, bidirectional, context_dependent, or unknown
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: regulation_type
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: string
  confidence_level:
    name: confidence_level
    description: Source-specific confidence level such as DoRothEA A-D
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: confidence_level
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - TranscriptionFactorRegulationAssociation
    range: string
  tissue_or_cell_type:
    name: tissue_or_cell_type
    description: Tissue or cell type context for the regulatory relationship
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: tissue_or_cell_type
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - TranscriptionFactorRegulationAssociation
    - GeneExpressionAssociation
    range: string
  association_id:
    name: association_id
    description: Stable identifier for the association record
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    slot_uri: schema:identifier
    alias: association_id
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Association
    range: uriorcurie
  association_label:
    name: association_label
    description: Human-readable summary of the association
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    slot_uri: rdfs:label
    alias: association_label
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Association
    range: string
  subject:
    name: subject
    description: Subject entity IRI or CURIE used to materialize a direct edge
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdf:subject
    alias: subject
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    range: string
    required: true
  object:
    name: object
    description: Object entity IRI or CURIE used to materialize a direct edge
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdf:object
    alias: object
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    range: string
    required: true
  source:
    name: source
    description: Data source for this association
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:source
    alias: source
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - NamedEntity
    - Relationship
    - Association
    range: string
  source_version:
    name: source_version
    description: Data source version or release date
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:hasVersion
    alias: source_version
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - OntologyClass
    - Association
    range: string
  evidence_type:
    name: evidence_type
    description: Type of supporting evidence
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: ECO:0000000
    alias: evidence_type
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    range: string
  evidence_source:
    name: evidence_source
    description: Publication, study, database record, or extraction artifact supporting
      the association
    from_schema: https://cair2015.github.io/als-kg
    alias: evidence_source
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    range: string
  confidence:
    name: confidence
    description: Normalized confidence score from 0 to 1
    from_schema: https://cair2015.github.io/als-kg
    alias: confidence
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - Relationship
    - Association
    range: string
  ingest_date:
    name: ingest_date
    description: Date this association was ingested
    from_schema: https://cair2015.github.io/als-kg
    alias: ingest_date
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - OntologyClass
    - Relationship
    - Association
    range: string
  last_updated:
    name: last_updated
    description: Date this association was last modified
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:modified
    alias: last_updated
    owner: TranscriptionFactorRegulationAssociation
    domain_of:
    - NamedEntity
    - Association
    range: string