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Class: GeneToPhenotypicFeatureAssociation

URI: biolink:GeneToPhenotypicFeatureAssociation

classDiagram class GeneToPhenotypicFeatureAssociation EntityToPhenotypicFeatureAssociationMixin <|-- GeneToPhenotypicFeatureAssociation GeneToEntityAssociationMixin <|-- GeneToPhenotypicFeatureAssociation GeneToDiseaseOrPhenotypicFeatureAssociation <|-- GeneToPhenotypicFeatureAssociation GeneToPhenotypicFeatureAssociation : aggregator_knowledge_source GeneToPhenotypicFeatureAssociation : category GeneToPhenotypicFeatureAssociation : description GeneToPhenotypicFeatureAssociation : frequency_qualifier GeneToPhenotypicFeatureAssociation : has_attribute GeneToPhenotypicFeatureAssociation --|> attribute : has_attribute GeneToPhenotypicFeatureAssociation : has_count GeneToPhenotypicFeatureAssociation : has_evidence GeneToPhenotypicFeatureAssociation --|> evidence type : has_evidence GeneToPhenotypicFeatureAssociation : has_percentage GeneToPhenotypicFeatureAssociation : has_quotient GeneToPhenotypicFeatureAssociation : has_total GeneToPhenotypicFeatureAssociation : id GeneToPhenotypicFeatureAssociation : iri GeneToPhenotypicFeatureAssociation : knowledge_source GeneToPhenotypicFeatureAssociation : name GeneToPhenotypicFeatureAssociation : negated GeneToPhenotypicFeatureAssociation : object GeneToPhenotypicFeatureAssociation --|> phenotypic feature : object GeneToPhenotypicFeatureAssociation : object_category GeneToPhenotypicFeatureAssociation --|> ontology class : object_category GeneToPhenotypicFeatureAssociation : object_category_closure GeneToPhenotypicFeatureAssociation --|> ontology class : object_category_closure GeneToPhenotypicFeatureAssociation : object_closure GeneToPhenotypicFeatureAssociation : object_direction_qualifier GeneToPhenotypicFeatureAssociation --|> DirectionQualifierEnum : object_direction_qualifier GeneToPhenotypicFeatureAssociation : object_label_closure GeneToPhenotypicFeatureAssociation : object_namespace GeneToPhenotypicFeatureAssociation : onset_qualifier GeneToPhenotypicFeatureAssociation --|> onset : onset_qualifier GeneToPhenotypicFeatureAssociation : original_object GeneToPhenotypicFeatureAssociation : original_predicate GeneToPhenotypicFeatureAssociation : original_subject GeneToPhenotypicFeatureAssociation : predicate GeneToPhenotypicFeatureAssociation : primary_knowledge_source GeneToPhenotypicFeatureAssociation : publications GeneToPhenotypicFeatureAssociation --|> publication : publications GeneToPhenotypicFeatureAssociation : qualifiers GeneToPhenotypicFeatureAssociation --|> ontology class : qualifiers GeneToPhenotypicFeatureAssociation : retrieval_source_ids GeneToPhenotypicFeatureAssociation --|> retrieval source : retrieval_source_ids GeneToPhenotypicFeatureAssociation : severity_qualifier GeneToPhenotypicFeatureAssociation --|> severity value : severity_qualifier GeneToPhenotypicFeatureAssociation : sex_qualifier GeneToPhenotypicFeatureAssociation --|> biological sex : sex_qualifier GeneToPhenotypicFeatureAssociation : subject GeneToPhenotypicFeatureAssociation --|> gene or gene product : subject GeneToPhenotypicFeatureAssociation : subject_aspect_qualifier GeneToPhenotypicFeatureAssociation --|> GeneOrGeneProductOrChemicalEntityAspectEnum : subject_aspect_qualifier GeneToPhenotypicFeatureAssociation : subject_category GeneToPhenotypicFeatureAssociation --|> ontology class : subject_category GeneToPhenotypicFeatureAssociation : subject_category_closure GeneToPhenotypicFeatureAssociation --|> ontology class : subject_category_closure GeneToPhenotypicFeatureAssociation : subject_closure GeneToPhenotypicFeatureAssociation : subject_label_closure GeneToPhenotypicFeatureAssociation : subject_namespace GeneToPhenotypicFeatureAssociation : timepoint GeneToPhenotypicFeatureAssociation : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
sex_qualifier 0..1
BiologicalSex
a qualifier used in a phenotypic association to state whether the association... EntityToPhenotypicFeatureAssociationMixin
subject_aspect_qualifier 0..1
GeneOrGeneProductOrChemicalEntityAspectEnum
GeneToDiseaseOrPhenotypicFeatureAssociation
object_direction_qualifier 0..1
DirectionQualifierEnum
GeneToDiseaseOrPhenotypicFeatureAssociation
subject 1..1
GeneOrGeneProduct
gene in which variation is correlated with the phenotypic feature Association
predicate 1..1
PredicateType
A high-level grouping for the relationship type Association
object 1..1
PhenotypicFeature
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
has_count 0..1
Integer
number of things with a particular property FrequencyQuantifier
has_total 0..1
Integer
total number of things in a particular reference set FrequencyQuantifier
has_quotient 0..1
Double
FrequencyQuantifier
has_percentage 0..1
Double
equivalent to has quotient multiplied by 100 FrequencyQuantifier
severity_qualifier 0..1
SeverityValue
a qualifier used in a phenotypic association to state how severe the phenotyp... EntityToFeatureOrDiseaseQualifiersMixin
onset_qualifier 0..1
Onset
a qualifier used in a phenotypic association to state when the phenotype appe... EntityToFeatureOrDiseaseQualifiersMixin
frequency_qualifier 0..1
FrequencyValue
a qualifier used in a phenotypic association to state how frequent the phenot... FrequencyQualifierMixin

Identifier and Mapping Information

Schema Source

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

Mappings

Mapping Type Mapped Value
self biolink:GeneToPhenotypicFeatureAssociation
native biolink:GeneToPhenotypicFeatureAssociation
exact WBVocab:Gene-Phenotype-Association

LinkML Source

Direct

name: gene to phenotypic feature association
from_schema: https://w3id.org/biolink/biolink-model
exact_mappings:
- WBVocab:Gene-Phenotype-Association
is_a: gene to disease or phenotypic feature association
mixins:
- entity to phenotypic feature association mixin
- gene to entity association mixin
slot_usage:
  subject:
    name: subject
    description: gene in which variation is correlated with the phenotypic feature
    examples:
    - value: HGNC:2197
      description: COL1A1 (Human)
    domain_of:
    - association
    range: gene or gene product
  object:
    name: object
    domain_of:
    - association
    range: phenotypic feature
defining_slots:
- subject
- object