Class: VariantToPhenotypicFeatureAssociation
URI: biolink:VariantToPhenotypicFeatureAssociation
classDiagram
class VariantToPhenotypicFeatureAssociation
VariantToEntityAssociationMixin <|-- VariantToPhenotypicFeatureAssociation
EntityToPhenotypicFeatureAssociationMixin <|-- VariantToPhenotypicFeatureAssociation
Association <|-- VariantToPhenotypicFeatureAssociation
VariantToPhenotypicFeatureAssociation : aggregator_knowledge_source
VariantToPhenotypicFeatureAssociation : category
VariantToPhenotypicFeatureAssociation : description
VariantToPhenotypicFeatureAssociation : frequency_qualifier
VariantToPhenotypicFeatureAssociation : has_attribute
VariantToPhenotypicFeatureAssociation --|> attribute : has_attribute
VariantToPhenotypicFeatureAssociation : has_count
VariantToPhenotypicFeatureAssociation : has_evidence
VariantToPhenotypicFeatureAssociation --|> evidence type : has_evidence
VariantToPhenotypicFeatureAssociation : has_percentage
VariantToPhenotypicFeatureAssociation : has_quotient
VariantToPhenotypicFeatureAssociation : has_total
VariantToPhenotypicFeatureAssociation : id
VariantToPhenotypicFeatureAssociation : iri
VariantToPhenotypicFeatureAssociation : knowledge_source
VariantToPhenotypicFeatureAssociation : name
VariantToPhenotypicFeatureAssociation : negated
VariantToPhenotypicFeatureAssociation : object
VariantToPhenotypicFeatureAssociation --|> phenotypic feature : object
VariantToPhenotypicFeatureAssociation : object_category
VariantToPhenotypicFeatureAssociation --|> ontology class : object_category
VariantToPhenotypicFeatureAssociation : object_category_closure
VariantToPhenotypicFeatureAssociation --|> ontology class : object_category_closure
VariantToPhenotypicFeatureAssociation : object_closure
VariantToPhenotypicFeatureAssociation : object_label_closure
VariantToPhenotypicFeatureAssociation : object_namespace
VariantToPhenotypicFeatureAssociation : onset_qualifier
VariantToPhenotypicFeatureAssociation --|> onset : onset_qualifier
VariantToPhenotypicFeatureAssociation : original_object
VariantToPhenotypicFeatureAssociation : original_predicate
VariantToPhenotypicFeatureAssociation : original_subject
VariantToPhenotypicFeatureAssociation : predicate
VariantToPhenotypicFeatureAssociation : primary_knowledge_source
VariantToPhenotypicFeatureAssociation : publications
VariantToPhenotypicFeatureAssociation --|> publication : publications
VariantToPhenotypicFeatureAssociation : qualifiers
VariantToPhenotypicFeatureAssociation --|> ontology class : qualifiers
VariantToPhenotypicFeatureAssociation : retrieval_source_ids
VariantToPhenotypicFeatureAssociation --|> retrieval source : retrieval_source_ids
VariantToPhenotypicFeatureAssociation : severity_qualifier
VariantToPhenotypicFeatureAssociation --|> severity value : severity_qualifier
VariantToPhenotypicFeatureAssociation : sex_qualifier
VariantToPhenotypicFeatureAssociation --|> biological sex : sex_qualifier
VariantToPhenotypicFeatureAssociation : subject
VariantToPhenotypicFeatureAssociation --|> sequence variant : subject
VariantToPhenotypicFeatureAssociation : subject_category
VariantToPhenotypicFeatureAssociation --|> ontology class : subject_category
VariantToPhenotypicFeatureAssociation : subject_category_closure
VariantToPhenotypicFeatureAssociation --|> ontology class : subject_category_closure
VariantToPhenotypicFeatureAssociation : subject_closure
VariantToPhenotypicFeatureAssociation : subject_label_closure
VariantToPhenotypicFeatureAssociation : subject_namespace
VariantToPhenotypicFeatureAssociation : timepoint
VariantToPhenotypicFeatureAssociation : type
Inheritance
- Entity
- Association
- VariantToPhenotypicFeatureAssociation [ VariantToEntityAssociationMixin EntityToPhenotypicFeatureAssociationMixin]
- 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 SequenceVariant |
a sequence variant in which the allele state is associated in some way with t... | 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:VariantToPhenotypicFeatureAssociation |
native | biolink:VariantToPhenotypicFeatureAssociation |
LinkML Source
Direct
name: variant to phenotypic feature association
from_schema: https://w3id.org/biolink/biolink-model
is_a: association
mixins:
- variant to entity association mixin
- entity to phenotypic feature association mixin
slot_usage:
subject:
name: subject
description: a sequence variant in which the allele state is associated in some
way with the phenotype state
domain_of:
- association
range: sequence variant
defining_slots:
- subject
- object