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Class: GenotypeToVariantAssociation

Any association between a genotype and a sequence variant.

URI: biolink:GenotypeToVariantAssociation

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

Inheritance

Slots

Name Cardinality and Range Description Inheritance
subject 1..1
Genotype		 parent genotype Association
predicate 1..1
PredicateType		 the relationship type used to connect genotype to gene Association
object 1..1
SequenceVariant		 gene implicated in genotype 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:GenotypeToVariantAssociation
native biolink:GenotypeToVariantAssociation

LinkML Source

Direct

name: genotype to variant association
description: Any association between a genotype and a sequence variant.
from_schema: https://w3id.org/biolink/biolink-model
is_a: association
slot_usage:
  predicate:
    name: predicate
    description: the relationship type used to connect genotype to gene
    domain_of:
    - predicate mapping
    - association
  subject:
    name: subject
    description: parent genotype
    domain_of:
    - association
    range: genotype
  object:
    name: object
    description: gene implicated in genotype
    domain_of:
    - association
    range: sequence variant
defining_slots:
- subject
- object