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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

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