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Class: CaseToPhenotypicFeatureAssociation

An association between a case (e.g. individual patient) and a phenotypic feature in which the individual has or has had the phenotype.

URI: biolink:CaseToPhenotypicFeatureAssociation

classDiagram class CaseToPhenotypicFeatureAssociation EntityToPhenotypicFeatureAssociationMixin <|-- CaseToPhenotypicFeatureAssociation CaseToEntityAssociationMixin <|-- CaseToPhenotypicFeatureAssociation Association <|-- CaseToPhenotypicFeatureAssociation CaseToPhenotypicFeatureAssociation : aggregator_knowledge_source CaseToPhenotypicFeatureAssociation : category CaseToPhenotypicFeatureAssociation : description CaseToPhenotypicFeatureAssociation : frequency_qualifier CaseToPhenotypicFeatureAssociation : has_attribute CaseToPhenotypicFeatureAssociation --|> attribute : has_attribute CaseToPhenotypicFeatureAssociation : has_count CaseToPhenotypicFeatureAssociation : has_evidence CaseToPhenotypicFeatureAssociation --|> evidence type : has_evidence CaseToPhenotypicFeatureAssociation : has_percentage CaseToPhenotypicFeatureAssociation : has_quotient CaseToPhenotypicFeatureAssociation : has_total CaseToPhenotypicFeatureAssociation : id CaseToPhenotypicFeatureAssociation : iri CaseToPhenotypicFeatureAssociation : knowledge_source CaseToPhenotypicFeatureAssociation : name CaseToPhenotypicFeatureAssociation : negated CaseToPhenotypicFeatureAssociation : object CaseToPhenotypicFeatureAssociation --|> phenotypic feature : object CaseToPhenotypicFeatureAssociation : object_category CaseToPhenotypicFeatureAssociation --|> ontology class : object_category CaseToPhenotypicFeatureAssociation : object_category_closure CaseToPhenotypicFeatureAssociation --|> ontology class : object_category_closure CaseToPhenotypicFeatureAssociation : object_closure CaseToPhenotypicFeatureAssociation : object_label_closure CaseToPhenotypicFeatureAssociation : object_namespace CaseToPhenotypicFeatureAssociation : onset_qualifier CaseToPhenotypicFeatureAssociation --|> onset : onset_qualifier CaseToPhenotypicFeatureAssociation : original_object CaseToPhenotypicFeatureAssociation : original_predicate CaseToPhenotypicFeatureAssociation : original_subject CaseToPhenotypicFeatureAssociation : predicate CaseToPhenotypicFeatureAssociation : primary_knowledge_source CaseToPhenotypicFeatureAssociation : publications CaseToPhenotypicFeatureAssociation --|> publication : publications CaseToPhenotypicFeatureAssociation : qualifiers CaseToPhenotypicFeatureAssociation --|> ontology class : qualifiers CaseToPhenotypicFeatureAssociation : retrieval_source_ids CaseToPhenotypicFeatureAssociation --|> retrieval source : retrieval_source_ids CaseToPhenotypicFeatureAssociation : severity_qualifier CaseToPhenotypicFeatureAssociation --|> severity value : severity_qualifier CaseToPhenotypicFeatureAssociation : sex_qualifier CaseToPhenotypicFeatureAssociation --|> biological sex : sex_qualifier CaseToPhenotypicFeatureAssociation : subject CaseToPhenotypicFeatureAssociation --|> case : subject CaseToPhenotypicFeatureAssociation : subject_category CaseToPhenotypicFeatureAssociation --|> ontology class : subject_category CaseToPhenotypicFeatureAssociation : subject_category_closure CaseToPhenotypicFeatureAssociation --|> ontology class : subject_category_closure CaseToPhenotypicFeatureAssociation : subject_closure CaseToPhenotypicFeatureAssociation : subject_label_closure CaseToPhenotypicFeatureAssociation : subject_namespace CaseToPhenotypicFeatureAssociation : timepoint CaseToPhenotypicFeatureAssociation : 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
Case
the case (e 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:CaseToPhenotypicFeatureAssociation
native biolink:CaseToPhenotypicFeatureAssociation

LinkML Source

Direct

name: case to phenotypic feature association
description: An association between a case (e.g. individual patient) and a phenotypic
  feature in which the individual has or has had the phenotype.
from_schema: https://w3id.org/biolink/biolink-model
is_a: association
mixins:
- entity to phenotypic feature association mixin
- case to entity association mixin
defining_slots:
- subject
- object