Class: GenotypeToPhenotypicFeatureAssociation
Any association between one genotype and a phenotypic feature, where having the genotype confers the phenotype, either in isolation or through environment
URI: biolink:GenotypeToPhenotypicFeatureAssociation
classDiagram
class GenotypeToPhenotypicFeatureAssociation
EntityToPhenotypicFeatureAssociationMixin <|-- GenotypeToPhenotypicFeatureAssociation
GenotypeToEntityAssociationMixin <|-- GenotypeToPhenotypicFeatureAssociation
Association <|-- GenotypeToPhenotypicFeatureAssociation
GenotypeToPhenotypicFeatureAssociation : aggregator_knowledge_source
GenotypeToPhenotypicFeatureAssociation : category
GenotypeToPhenotypicFeatureAssociation : description
GenotypeToPhenotypicFeatureAssociation : frequency_qualifier
GenotypeToPhenotypicFeatureAssociation : has_attribute
GenotypeToPhenotypicFeatureAssociation --|> attribute : has_attribute
GenotypeToPhenotypicFeatureAssociation : has_count
GenotypeToPhenotypicFeatureAssociation : has_evidence
GenotypeToPhenotypicFeatureAssociation --|> evidence type : has_evidence
GenotypeToPhenotypicFeatureAssociation : has_percentage
GenotypeToPhenotypicFeatureAssociation : has_quotient
GenotypeToPhenotypicFeatureAssociation : has_total
GenotypeToPhenotypicFeatureAssociation : id
GenotypeToPhenotypicFeatureAssociation : iri
GenotypeToPhenotypicFeatureAssociation : knowledge_source
GenotypeToPhenotypicFeatureAssociation : name
GenotypeToPhenotypicFeatureAssociation : negated
GenotypeToPhenotypicFeatureAssociation : object
GenotypeToPhenotypicFeatureAssociation --|> phenotypic feature : object
GenotypeToPhenotypicFeatureAssociation : object_category
GenotypeToPhenotypicFeatureAssociation --|> ontology class : object_category
GenotypeToPhenotypicFeatureAssociation : object_category_closure
GenotypeToPhenotypicFeatureAssociation --|> ontology class : object_category_closure
GenotypeToPhenotypicFeatureAssociation : object_closure
GenotypeToPhenotypicFeatureAssociation : object_label_closure
GenotypeToPhenotypicFeatureAssociation : object_namespace
GenotypeToPhenotypicFeatureAssociation : onset_qualifier
GenotypeToPhenotypicFeatureAssociation --|> onset : onset_qualifier
GenotypeToPhenotypicFeatureAssociation : original_object
GenotypeToPhenotypicFeatureAssociation : original_predicate
GenotypeToPhenotypicFeatureAssociation : original_subject
GenotypeToPhenotypicFeatureAssociation : predicate
GenotypeToPhenotypicFeatureAssociation : primary_knowledge_source
GenotypeToPhenotypicFeatureAssociation : publications
GenotypeToPhenotypicFeatureAssociation --|> publication : publications
GenotypeToPhenotypicFeatureAssociation : qualifiers
GenotypeToPhenotypicFeatureAssociation --|> ontology class : qualifiers
GenotypeToPhenotypicFeatureAssociation : retrieval_source_ids
GenotypeToPhenotypicFeatureAssociation --|> retrieval source : retrieval_source_ids
GenotypeToPhenotypicFeatureAssociation : severity_qualifier
GenotypeToPhenotypicFeatureAssociation --|> severity value : severity_qualifier
GenotypeToPhenotypicFeatureAssociation : sex_qualifier
GenotypeToPhenotypicFeatureAssociation --|> biological sex : sex_qualifier
GenotypeToPhenotypicFeatureAssociation : subject
GenotypeToPhenotypicFeatureAssociation --|> genotype : subject
GenotypeToPhenotypicFeatureAssociation : subject_category
GenotypeToPhenotypicFeatureAssociation --|> ontology class : subject_category
GenotypeToPhenotypicFeatureAssociation : subject_category_closure
GenotypeToPhenotypicFeatureAssociation --|> ontology class : subject_category_closure
GenotypeToPhenotypicFeatureAssociation : subject_closure
GenotypeToPhenotypicFeatureAssociation : subject_label_closure
GenotypeToPhenotypicFeatureAssociation : subject_namespace
GenotypeToPhenotypicFeatureAssociation : timepoint
GenotypeToPhenotypicFeatureAssociation : type
Inheritance
- Entity
- Association
- GenotypeToPhenotypicFeatureAssociation [ EntityToPhenotypicFeatureAssociationMixin GenotypeToEntityAssociationMixin]
- Association
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 | 1..1 Genotype |
genotype that is associated 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:GenotypeToPhenotypicFeatureAssociation |
| native | biolink:GenotypeToPhenotypicFeatureAssociation |
LinkML Source
Direct
name: genotype to phenotypic feature association
description: Any association between one genotype and a phenotypic feature, where
having the genotype confers the phenotype, either in isolation or through environment
from_schema: https://w3id.org/biolink/biolink-model
is_a: association
mixins:
- entity to phenotypic feature association mixin
- genotype to entity association mixin
slot_usage:
predicate:
name: predicate
domain_of:
- predicate mapping
- association
subproperty_of: has phenotype
subject:
name: subject
description: genotype that is associated with the phenotypic feature
domain_of:
- association
range: genotype
defining_slots:
- subject
- object