GeneChangeEventSlotAnnotationDTO

A major change to a gene: e.g., new, merge, split, rename, deprecation (DTO class).

classDiagram ChangeEventSlotAnnotationDTO <|-- GeneChangeEventSlotAnnotationDTO GeneChangeEventSlotAnnotationDTO : acquires_in_merge_curies GeneChangeEventSlotAnnotationDTO : created_by_curie GeneChangeEventSlotAnnotationDTO : current_version GeneChangeEventSlotAnnotationDTO : date_created GeneChangeEventSlotAnnotationDTO : date_updated GeneChangeEventSlotAnnotationDTO : db_date_created GeneChangeEventSlotAnnotationDTO : db_date_updated GeneChangeEventSlotAnnotationDTO : event_status_name GeneChangeEventSlotAnnotationDTO : event_type_name GeneChangeEventSlotAnnotationDTO : evidence_curies GeneChangeEventSlotAnnotationDTO : full_name_renamed_from GeneChangeEventSlotAnnotationDTO : full_name_renamed_to GeneChangeEventSlotAnnotationDTO : gene_identifier GeneChangeEventSlotAnnotationDTO : internal GeneChangeEventSlotAnnotationDTO : merged_into_curie GeneChangeEventSlotAnnotationDTO : note_dtos GeneChangeEventSlotAnnotationDTO : obsolete GeneChangeEventSlotAnnotationDTO : split_from_curie GeneChangeEventSlotAnnotationDTO : split_into_curies GeneChangeEventSlotAnnotationDTO : symbol_renamed_from GeneChangeEventSlotAnnotationDTO : symbol_renamed_to GeneChangeEventSlotAnnotationDTO : updated_by_curie

URI: alliance:GeneChangeEventSlotAnnotationDTO

Parent Classes

AuditedObjectDTO
- SlotAnnotationDTO
  - ChangeEventSlotAnnotationDTO
    - GeneChangeEventSlotAnnotationDTO

Slots

Name	Description
acquires_in_merge_curies	Curies of the entities subsumed by an entity that persists through a merge.
created_by_curie	Curie of the Person object representing the individual that created the entity
current_version	The current version of the entity, generated by this nomenclature event. It starts at one, and is incremented by one with every major change.
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.
event_status_name	Name of the VocabularyTerm describing the status of an event change: provisional or approved.
event_type_name	Name of the VocabularyTerm describing the category of major change event for an entity.
evidence_curies	Curies of InformationContentEntity objects given as evidence
full_name_renamed_from	The previous full_name for a renamed entity.
full_name_renamed_to	The new full_name for a renamed entity.
gene_identifier	Identifier (curie/primary_external_id/mod_internal_id) of the gene
internal	Classifies the entity as private (for internal use) or not (for public use).
merged_into_curie	Curie of the entity into which a deprecated entity was merged.
note_dtos	None
obsolete	Entity is no longer current.
split_from_curie	Curie of the entity from which an entity was split.
split_into_curies	Curies of the entities generated by a split of a deprecated entity.
symbol_renamed_from	The previous symbol for a renamed entity.
symbol_renamed_to	The new symbol for a renamed entity.
updated_by_curie	Curie of the Person object representing the individual that updated the entity

Mappings

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

LinkML Specification

Direct

name: GeneChangeEventSlotAnnotationDTO
description: 'A major change to a gene: e.g., new, merge, split, rename, deprecation
  (DTO class).'
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: ChangeEventSlotAnnotationDTO
slots:
- gene_identifier
slot_usage:
  gene_identifier:
    name: gene_identifier
    required: true

Induced

name: GeneChangeEventSlotAnnotationDTO
description: 'A major change to a gene: e.g., new, merge, split, rename, deprecation
  (DTO class).'
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: ChangeEventSlotAnnotationDTO
slot_usage:
  gene_identifier:
    name: gene_identifier
    required: true
attributes:
  gene_identifier:
    name: gene_identifier
    description: Identifier (curie/primary_external_id/mod_internal_id) of the gene
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: gene_identifier
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - StrGeneAssociationDTO
    - AlleleGeneAssociationDTO
    - GeneFunctionalGeneSetAssociationDTO
    - GeneChangeEventSlotAnnotationDTO
    - GeneOntologyAnnotationDTO
    - GenePhenotypeAnnotationDTO
    - GeneDiseaseAnnotationDTO
    range: string
    required: true
  event_type_name:
    name: event_type_name
    description: Name of the VocabularyTerm describing the category of major change
      event for an entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: event_type_name
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: true
    multivalued: false
  event_status_name:
    name: event_status_name
    description: 'Name of the VocabularyTerm describing the status of an event change:
      provisional or approved.'
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: event_status_name
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  current_version:
    name: current_version
    description: The current version of the entity, generated by this nomenclature
      event. It starts at one, and is incremented by one with every major change.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: current_version
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotation
    - ChangeEventSlotAnnotationDTO
    range: integer
    required: false
    multivalued: false
  note_dtos:
    name: note_dtos
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: note_dtos
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - SubmittedObjectDTO
    - ChangeEventSlotAnnotationDTO
    - ConstructComponentSlotAnnotationDTO
    - ConstructGenomicEntityAssociationDTO
    - ConstructCassetteAssociationDTO
    - CassetteComponentSlotAnnotationDTO
    - CassetteGenomicEntityAssociationDTO
    - CassetteTransgenicToolAssociationDTO
    - CassetteStrAssociationDTO
    - AnnotationDTO
    - HTPExpressionDatasetSampleAnnotationDTO
    range: NoteDTO
    multivalued: true
    inlined: true
    inlined_as_list: true
  acquires_in_merge_curies:
    name: acquires_in_merge_curies
    description: Curies of the entities subsumed by an entity that persists through
      a merge.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: acquires_in_merge_curies
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: true
  merged_into_curie:
    name: merged_into_curie
    description: Curie of the entity into which a deprecated entity was merged.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: merged_into_curie
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  split_from_curie:
    name: split_from_curie
    description: Curie of the entity from which an entity was split.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: split_from_curie
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  split_into_curies:
    name: split_into_curies
    description: Curies of the entities generated by a split of a deprecated entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: split_into_curies
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: true
  symbol_renamed_to:
    name: symbol_renamed_to
    description: The new symbol for a renamed entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: symbol_renamed_to
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotation
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  symbol_renamed_from:
    name: symbol_renamed_from
    description: The previous symbol for a renamed entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: symbol_renamed_from
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotation
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  full_name_renamed_to:
    name: full_name_renamed_to
    description: The new full_name for a renamed entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: full_name_renamed_to
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotation
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  full_name_renamed_from:
    name: full_name_renamed_from
    description: The previous full_name for a renamed entity.
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: full_name_renamed_from
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - ChangeEventSlotAnnotation
    - ChangeEventSlotAnnotationDTO
    range: string
    required: false
    multivalued: false
  evidence_curies:
    name: evidence_curies
    description: Curies of InformationContentEntity objects given as evidence
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    alias: evidence_curies
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - NoteDTO
    - SlotAnnotationDTO
    - EvidenceAssociationDTO
    - GeneGeneAssociationDTO
    range: string
    multivalued: true
  created_by_curie:
    name: created_by_curie
    description: Curie of the Person object representing the individual that created
      the entity
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObjectDTO
    alias: created_by_curie
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - AuditedObjectDTO
    range: string
  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: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: datetime
  updated_by_curie:
    name: updated_by_curie
    description: Curie of the Person object representing the individual that updated
      the entity
    from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
    domain: AuditedObjectDTO
    alias: updated_by_curie
    owner: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - AuditedObjectDTO
    range: string
  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: GeneChangeEventSlotAnnotationDTO
    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: GeneChangeEventSlotAnnotationDTO
    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: GeneChangeEventSlotAnnotationDTO
    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: GeneChangeEventSlotAnnotationDTO
    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: GeneChangeEventSlotAnnotationDTO
    domain_of:
    - AuditedObject
    - AuditedObjectDTO
    range: boolean