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Class: Anatomy

Anatomical structure (UBERON ontology). ALS-specific relevance: motor cortex, spinal cord, anterior horn cells, neuromuscular junction. Linked to gene expression and disease manifestation.

URI: biolink:AnatomicalEntity

 classDiagram
    class Anatomy
    click Anatomy href "../Anatomy/"
      OntologyClass <|-- Anatomy
        click OntologyClass href "../OntologyClass/"

      Anatomy : anatomical_system

      Anatomy : bto_id

      Anatomy : comment

      Anatomy : definition

      Anatomy : id

      Anatomy : ingest_date

      Anatomy : is_obsolete

      Anatomy : label

      Anatomy : last_updated

      Anatomy : mesh_id

      Anatomy : source

      Anatomy : source_version

      Anatomy : synonym

      Anatomy : uberon_id

      Anatomy : xref

Inheritance

Class Properties

Property Value
Class URI biolink:AnatomicalEntity

Slots

Name Cardinality and Range Description Inheritance
uberon_id 1
UberonIdentifier		 direct
bto_id 0..1
String		 Brenda Tissue Ontology ID direct
mesh_id 0..1
String		 MeSH cross-reference direct
anatomical_system 0..1
String		 Anatomical system classification direct
source_version 0..1
String		 Source database/ontology version OntologyClass
ingest_date 0..1
String		 When entity was imported into ALS-KG OntologyClass
id 1
String		 Persistent unique identifier (IRI) NamedEntity
label 1
String		 Preferred human-readable label NamedEntity
definition 0..1
String		 Formal textual definition NamedEntity
synonym 0..1
String		 Alternative names NamedEntity
xref 0..1
String		 Cross-references to external ontologies NamedEntity
comment 0..1
String		 Informal notes or comments NamedEntity
is_obsolete 0..1
String		 Deprecation flag NamedEntity
source 0..1
String		 Original source/database NamedEntity
last_updated 0..1
String		 Last modification timestamp NamedEntity

Usages

used by used in type used
GeneExpressionAssociation has_anatomy range Anatomy

Identifier and Mapping Information

Schema Source

  • from schema: https://cair2015.github.io/als-kg

Mappings

Mapping Type Mapped Value
self biolink:AnatomicalEntity
native alskb:Anatomy

LinkML Source

Direct

name: Anatomy
description: 'Anatomical structure (UBERON ontology). ALS-specific relevance: motor
  cortex, spinal cord, anterior horn cells, neuromuscular junction. Linked to gene
  expression and disease manifestation.'
from_schema: https://cair2015.github.io/als-kg
is_a: OntologyClass
attributes:
  uberon_id:
    name: uberon_id
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    identifier: true
    domain_of:
    - Anatomy
    range: UberonIdentifier
    required: true
  bto_id:
    name: bto_id
    description: Brenda Tissue Ontology ID
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - Anatomy
  mesh_id:
    name: mesh_id
    description: MeSH cross-reference
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - Anatomy
    - ExposureOrStressor
  anatomical_system:
    name: anatomical_system
    description: Anatomical system classification
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    domain_of:
    - Anatomy
class_uri: biolink:AnatomicalEntity

Induced

name: Anatomy
description: 'Anatomical structure (UBERON ontology). ALS-specific relevance: motor
  cortex, spinal cord, anterior horn cells, neuromuscular junction. Linked to gene
  expression and disease manifestation.'
from_schema: https://cair2015.github.io/als-kg
is_a: OntologyClass
attributes:
  uberon_id:
    name: uberon_id
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    identifier: true
    alias: uberon_id
    owner: Anatomy
    domain_of:
    - Anatomy
    range: UberonIdentifier
    required: true
  bto_id:
    name: bto_id
    description: Brenda Tissue Ontology ID
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: bto_id
    owner: Anatomy
    domain_of:
    - Anatomy
    range: string
  mesh_id:
    name: mesh_id
    description: MeSH cross-reference
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: mesh_id
    owner: Anatomy
    domain_of:
    - Anatomy
    - ExposureOrStressor
    range: string
  anatomical_system:
    name: anatomical_system
    description: Anatomical system classification
    from_schema: https://cair2015.github.io/als-kg
    rank: 1000
    alias: anatomical_system
    owner: Anatomy
    domain_of:
    - Anatomy
    range: string
  source_version:
    name: source_version
    description: Source database/ontology version
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:hasVersion
    alias: source_version
    owner: Anatomy
    domain_of:
    - OntologyClass
    - Association
    range: string
  ingest_date:
    name: ingest_date
    description: When entity was imported into ALS-KG
    from_schema: https://cair2015.github.io/als-kg
    alias: ingest_date
    owner: Anatomy
    domain_of:
    - OntologyClass
    - Relationship
    - Association
    range: string
  id:
    name: id
    description: Persistent unique identifier (IRI)
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: schema:identifier
    alias: id
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
    required: true
  label:
    name: label
    description: Preferred human-readable label
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdfs:label
    alias: label
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
    required: true
  definition:
    name: definition
    description: Formal textual definition
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: IAO:0000115
    alias: definition
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
  synonym:
    name: synonym
    description: Alternative names
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: oboInOwl:hasRelatedSynonym
    alias: synonym
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
  xref:
    name: xref
    description: Cross-references to external ontologies
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: oboInOwl:hasDbXref
    alias: xref
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
  comment:
    name: comment
    description: Informal notes or comments
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: rdfs:comment
    alias: comment
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
  is_obsolete:
    name: is_obsolete
    description: Deprecation flag
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: owl:deprecated
    ifabsent: 'false'
    alias: is_obsolete
    owner: Anatomy
    domain_of:
    - NamedEntity
    range: string
  source:
    name: source
    description: Original source/database
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:source
    alias: source
    owner: Anatomy
    domain_of:
    - NamedEntity
    - Relationship
    - Association
    range: string
  last_updated:
    name: last_updated
    description: Last modification timestamp
    from_schema: https://cair2015.github.io/als-kg
    slot_uri: dcterms:modified
    alias: last_updated
    owner: Anatomy
    domain_of:
    - NamedEntity
    - Association
    range: string
class_uri: biolink:AnatomicalEntity