GeneNomenclatureSet

WB specific. A gene class is a set of genes which share nomenclature, belonging to the same gene class.

classDiagram AuditedObject <|-- GeneNomenclatureSet GeneNomenclatureSet : created_by GeneNomenclatureSet : curie GeneNomenclatureSet : date_created GeneNomenclatureSet : date_updated GeneNomenclatureSet : db_date_created GeneNomenclatureSet : db_date_updated GeneNomenclatureSet : designating_laboratory GeneNomenclatureSet : genes GeneNomenclatureSet : internal GeneNomenclatureSet : obsolete GeneNomenclatureSet : old_members GeneNomenclatureSet : related_note GeneNomenclatureSet : synonyms GeneNomenclatureSet : updated_by

URI: alliance:GeneNomenclatureSet

Parent Classes

AuditedObject
- GeneNomenclatureSet

Slots

Name	Description
created_by	The individual that created the entity.
curie	A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI
date_created	The date on which an entity was created. This can be applied to nodes or edges.
date_updated	Date on which an entity was last modified.
db_date_created	The date on which an entity was created in the Alliance database. This is distinct from date_created, which represents the date when the entity was originally created (i.e. at the MOD for imported data).
db_date_updated	Date on which an entity was last modified in the Alliance database. This is distinct from date_updated, which represents the date when the entity was last modified and may predate import into the Alliance database.
designating_laboratory	A laboratory which designated this gene class
genes	None
internal	Classifies the entity as private (for internal use) or not (for public use).
obsolete	Entity is no longer current.
old_members	Gene which were formerly members of this GeneClass
related_note	Holds between an object and a Note object.
synonyms	A generic free-text field for objects that only have string representation of one or more synonyms and do not require meta data or attribution; if meta data or attribution are required to be captured for individual synonyms, consider the NameSlotAnnotation class
updated_by	The individual that last modified the entity.

Mappings

Mapping Type	Mapped Value
self	['alliance:GeneNomenclatureSet']
native	['alliance:GeneNomenclatureSet']

LinkML Specification

Direct

name: GeneNomenclatureSet
description: WB specific. A gene class is a set of genes which share nomenclature,
  belonging to the same gene class.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AuditedObject
slots:
- genes
- curie
- designating_laboratory
- old_members
- synonyms
- related_note

Induced

name: GeneNomenclatureSet
description: WB specific. A gene class is a set of genes which share nomenclature,
  belonging to the same gene class.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: AuditedObject
attributes:
  genes:
    name: genes
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: true
    alias: genes
    owner: GeneNomenclatureSet
    domain_of:
    - GeneCluster
    - GeneCollection
    - GeneNomenclatureSet
    - Operon
    - UniGeneSet
    - FunctionalGeneSet
    range: Gene
  curie:
    name: curie
    description: A unique identifier for a thing. Must be either a CURIE shorthand
      for a URI or a complete URI
    from_schema: https://github.com/alliance-genome/agr_curation_schema/core.yaml
    multivalued: false
    alias: curie
    owner: GeneNomenclatureSet
    domain_of:
    - CurieObject
    - Identifier
    - OntologyTerm
    - Laboratory
    - Annotation
    - ExternalDataBaseEntityDTO
    - GeneNomenclatureSet
    range: uriorcurie
  designating_laboratory:
    name: designating_laboratory
    description: A laboratory which designated this gene class
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: Gene
    multivalued: false
    alias: designating_laboratory
    owner: GeneNomenclatureSet
    domain_of:
    - GeneNomenclatureSet
    range: Laboratory
    required: true
  old_members:
    name: old_members
    description: Gene which were formerly members of this GeneClass
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: GeneNomenclatureSet
    multivalued: true
    alias: old_members
    owner: GeneNomenclatureSet
    domain_of:
    - GeneNomenclatureSet
    range: Gene
    required: false
  synonyms:
    name: synonyms
    description: A generic free-text field for objects that only have string representation
      of one or more synonyms and do not require meta data or attribution; if meta
      data or attribution are required to be captured for individual synonyms, consider
      the NameSlotAnnotation class
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: true
    alias: synonyms
    owner: GeneNomenclatureSet
    domain_of:
    - SequenceTargetingReagent
    - SequenceTargetingReagentDTO
    - ResourceDescriptor
    - VocabularyTerm
    - OntologyTerm
    - Resource
    - GeneNomenclatureSet
    range: string
    required: false
  related_note:
    name: related_note
    description: Holds between an object and a Note object.
    notes:
    - Singular version of related_notes
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    multivalued: false
    alias: related_note
    owner: GeneNomenclatureSet
    domain_of:
    - AlleleGenomicEntityAssociation
    - HTPExpressionDatasetAnnotation
    - GeneCluster
    - GeneCollection
    - GeneNomenclatureSet
    - Operon
    range: Note
  created_by:
    name: created_by
    description: The individual that created the entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObject
    multivalued: false
    alias: created_by
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    range: Person
  date_created:
    name: date_created
    description: The date on which an entity was created. This can be applied to nodes
      or edges.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    aliases:
    - creation_date
    exact_mappings:
    - dct:createdOn
    - WIKIDATA_PROPERTY:P577
    alias: date_created
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  updated_by:
    name: updated_by
    description: The individual that last modified the entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObject
    multivalued: false
    alias: updated_by
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    range: Person
  date_updated:
    name: date_updated
    description: Date on which an entity was last modified.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    aliases:
    - date_last_modified
    alias: date_updated
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  db_date_created:
    name: db_date_created
    description: The date on which an entity was created in the Alliance database.  This
      is distinct from date_created, which represents the date when the entity was
      originally created (i.e. at the MOD for imported data).
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: db_date_created
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  db_date_updated:
    name: db_date_updated
    description: Date on which an entity was last modified in the Alliance database.  This
      is distinct from date_updated, which represents the date when the entity was
      last modified and may predate import into the Alliance database.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: db_date_updated
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  internal:
    name: internal
    description: Classifies the entity as private (for internal use) or not (for public
      use).
    notes:
    - Default value is true.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: internal
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean
    required: true
  obsolete:
    name: obsolete
    description: Entity is no longer current.
    notes:
    - Obsolete entities are preserved in the database for posterity but should not
      be publicly displayed.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: obsolete
    owner: GeneNomenclatureSet
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean