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Class: MolecularEntity

Abstract base for molecular-level entities (genes, proteins, variants). Directly related to disease mechanisms via molecular interactions.

  • NOTE: this is an abstract class and should not be instantiated directly

URI: biolink:MolecularEntity

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


      MolecularEntity <|-- Gene
        click Gene href "../Gene/"
      MolecularEntity <|-- Protein
        click Protein href "../Protein/"
      MolecularEntity <|-- Variant
        click Variant href "../Variant/"


      MolecularEntity : comment

      MolecularEntity : definition

      MolecularEntity : id

      MolecularEntity : ingest_date

      MolecularEntity : is_obsolete

      MolecularEntity : label

      MolecularEntity : last_updated

      MolecularEntity : source

      MolecularEntity : source_version

      MolecularEntity : synonym

      MolecularEntity : xref

Inheritance

Class Properties

Property Value
Class URI biolink:MolecularEntity

Slots

Name Cardinality and Range Description Inheritance
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
DrugTargetAssociation target range MolecularEntity

Identifier and Mapping Information

Schema Source

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

Mappings

Mapping Type Mapped Value
self biolink:MolecularEntity
native alskb:MolecularEntity

LinkML Source

Direct

name: MolecularEntity
description: Abstract base for molecular-level entities (genes, proteins, variants).
  Directly related to disease mechanisms via molecular interactions.
from_schema: https://cair2015.github.io/als-kg
is_a: OntologyClass
abstract: true
class_uri: biolink:MolecularEntity

Induced

name: MolecularEntity
description: Abstract base for molecular-level entities (genes, proteins, variants).
  Directly related to disease mechanisms via molecular interactions.
from_schema: https://cair2015.github.io/als-kg
is_a: OntologyClass
abstract: true
attributes:
  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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    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: MolecularEntity
    domain_of:
    - NamedEntity
    - Association
    range: string
class_uri: biolink:MolecularEntity