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Class: Entity

Represents an Entity in the Monarch KG data model

URI: https://w3id.org/monarch/monarch-py/:Entity

 classDiagram
    class Entity
    click Entity href "../Entity"
      Entity <|-- Node
        click Node href "../Node"
      Entity <|-- SearchResult
        click SearchResult href "../SearchResult"

      Entity : category

      Entity : deprecated

      Entity : description

      Entity : full_name

      Entity : has_phenotype

      Entity : has_phenotype_closure

      Entity : has_phenotype_closure_label

      Entity : has_phenotype_count

      Entity : has_phenotype_label

      Entity : id

      Entity : in_taxon

      Entity : in_taxon_label

      Entity : iri

      Entity : name

      Entity : namespace

      Entity : provided_by

      Entity : symbol

      Entity : synonym

      Entity : uri

      Entity : xref

Inheritance

Slots

Name Cardinality and Range Description Inheritance
id 1
String
direct
category 0..1
String
direct
name 0..1
String
direct
full_name 0..1
String
The long form name of an entity direct
deprecated 0..1
Boolean
A boolean flag indicating that an entity is no longer considered current or v... direct
description 0..1
String
direct
xref *
String
direct
provided_by 0..1
String
direct
in_taxon 0..1
String
The biolink taxon that the entity is in the closure of direct
in_taxon_label 0..1
String
The label of the biolink taxon that the entity is in the closure of direct
symbol 0..1
String
direct
synonym *
String
direct
uri 0..1
String
The URI of the entity direct
iri 0..1
String
direct
namespace 0..1
String
The namespace/prefix portion of this entity's identifier direct
has_phenotype *
String
A list of phenotype identifiers that are known to be associated with this ent... direct
has_phenotype_label *
String
A list of phenotype labels that are known to be associated with this entity direct
has_phenotype_closure *
String
A list of phenotype identifiers that are known to be associated with this ent... direct
has_phenotype_closure_label *
String
A list of phenotype labels that are known to be associated with this entity e... direct
has_phenotype_count 0..1
Integer
A count of the number of phenotypes that are known to be associated with this... direct

Usages

used by used in type used
EntityResults items range Entity
Node inheritance range Entity
Node causal_gene range Entity
Node causes_disease range Entity
NodeHierarchy super_classes range Entity
NodeHierarchy sub_classes range Entity
TextAnnotationResult tokens range Entity
SemsimSearchResult subject range Entity

Identifier and Mapping Information

Schema Source

Mappings

Mapping Type Mapped Value
self https://w3id.org/monarch/monarch-py/:Entity
native https://w3id.org/monarch/monarch-py/:Entity

LinkML Source

Direct

name: Entity
description: Represents an Entity in the Monarch KG data model
from_schema: https://w3id.org/monarch/monarch-py
slots:
- id
- category
- name
- full_name
- deprecated
- description
- xref
- provided_by
- in_taxon
- in_taxon_label
- symbol
- synonym
- uri
- iri
- namespace
- has_phenotype
- has_phenotype_label
- has_phenotype_closure
- has_phenotype_closure_label
- has_phenotype_count

Induced

name: Entity
description: Represents an Entity in the Monarch KG data model
from_schema: https://w3id.org/monarch/monarch-py
attributes:
  id:
    name: id
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    identifier: true
    alias: id
    owner: Entity
    domain_of:
    - Association
    - ExpandedCurie
    - Entity
    - HistoPheno
    - HistoBin
    - Mapping
    - MultiEntityAssociationResults
    - TermInfo
    range: string
    required: true
  category:
    name: category
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: category
    owner: Entity
    domain_of:
    - Association
    - AssociationCount
    - CompactAssociation
    - AssociationTypeMapping
    - Entity
    range: string
    multivalued: false
  name:
    name: name
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: name
    owner: Entity
    domain_of:
    - Entity
    - MultiEntityAssociationResults
    range: string
  full_name:
    name: full_name
    description: The long form name of an entity
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: full_name
    owner: Entity
    domain_of:
    - Entity
    range: string
  deprecated:
    name: deprecated
    description: A boolean flag indicating that an entity is no longer considered
      current or valid.
    from_schema: https://w3id.org/monarch/monarch-py
    exact_mappings:
    - oboInOwl:ObsoleteClass
    rank: 1000
    alias: deprecated
    owner: Entity
    domain_of:
    - Entity
    range: boolean
  description:
    name: description
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: description
    owner: Entity
    domain_of:
    - Entity
    range: string
  xref:
    name: xref
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: xref
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
  provided_by:
    name: provided_by
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: provided_by
    owner: Entity
    domain_of:
    - Association
    - Entity
    range: string
  in_taxon:
    name: in_taxon
    description: The biolink taxon that the entity is in the closure of.
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: in_taxon
    owner: Entity
    domain_of:
    - Entity
    - Node
    range: string
  in_taxon_label:
    name: in_taxon_label
    description: The label of the biolink taxon that the entity is in the closure
      of.
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: in_taxon_label
    owner: Entity
    domain_of:
    - Entity
    - Node
    range: string
  symbol:
    name: symbol
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: symbol
    owner: Entity
    domain_of:
    - Entity
    range: string
  synonym:
    name: synonym
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: synonym
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
  uri:
    name: uri
    description: The URI of the entity
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: uri
    owner: Entity
    domain_of:
    - Entity
    range: string
  iri:
    name: iri
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: iri
    owner: Entity
    domain_of:
    - Entity
    range: string
  namespace:
    name: namespace
    description: The namespace/prefix portion of this entity's identifier
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: namespace
    owner: Entity
    domain_of:
    - Entity
    range: string
  has_phenotype:
    name: has_phenotype
    description: A list of phenotype identifiers that are known to be associated with
      this entity
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: has_phenotype
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
    inlined: true
    inlined_as_list: true
  has_phenotype_label:
    name: has_phenotype_label
    description: A list of phenotype labels that are known to be associated with this
      entity
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: has_phenotype_label
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
    inlined: true
    inlined_as_list: true
  has_phenotype_closure:
    name: has_phenotype_closure
    description: A list of phenotype identifiers that are known to be associated with
      this entity expanded to include all ancestors
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: has_phenotype_closure
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
    inlined: true
    inlined_as_list: true
  has_phenotype_closure_label:
    name: has_phenotype_closure_label
    description: A list of phenotype labels that are known to be associated with this
      entity expanded to include all ancestors
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: has_phenotype_closure_label
    owner: Entity
    domain_of:
    - Entity
    range: string
    multivalued: true
    inlined: true
    inlined_as_list: true
  has_phenotype_count:
    name: has_phenotype_count
    description: A count of the number of phenotypes that are known to be associated
      with this entity
    from_schema: https://w3id.org/monarch/monarch-py
    rank: 1000
    alias: has_phenotype_count
    owner: Entity
    domain_of:
    - Entity
    range: integer