The ancestors of this term in the ontology, including the term itself. This language works well for the majority of use cases, however for a relationship like "develops_from", ancestors are the terms from which this term develops (not a true parent/child or ancestor/descendant relationship).
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).
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.
Typically the primary key on the table. Should be a global sequence in the database to insure uniqueness over the entire suite of tables. Alternatively, could be a serial8 identifier. Tables with a dbkey should have an alternate key to establish uniqueness based on the data in the table.
The definition of the ontology term. This is a reference to an object that holds the text description of the term and a collection of URLs that further define the term.
The descendants of this term in the ontology, including the term itself. This language works well for the majority of use cases, however for a relationship like "develops_from", ancestors are the terms to which this term develops into (not a true parent/child or ancestor/descendant relationship).
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
name: NCBITaxonTerm
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
is_a: OntologyTerm
attributes:
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
identifier: true
alias: curie
owner: NCBITaxonTerm
domain_of:
- CurieObject
- Identifier
- OntologyTerm
- Laboratory
- Annotation
- ExternalDataBaseEntityDTO
- GeneNomenclatureSet
range: uriorcurie
required: true
dbkey:
name: dbkey
description: Typically the primary key on the table. Should be a global sequence
in the database to insure uniqueness over the entire suite of tables. Alternatively,
could be a serial8 identifier. Tables with a dbkey should have an alternate
key to establish uniqueness based on the data in the table.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: dbkey
owner: NCBITaxonTerm
domain_of:
- ExternalDatabaseLink
- OntologyTerm
range: string
name:
name: name
description: a human-readable name for an entity
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
multivalued: false
alias: name
owner: NCBITaxonTerm
domain_of:
- SequenceTargetingReagent
- SequenceTargetingReagentDTO
- Antibody
- AntibodyDTO
- Transcript
- TranscriptDTO
- Exon
- ExonDTO
- CodingSequence
- CodingSequenceDTO
- Chromosome
- ChromosomeDTO
- AssemblyComponent
- AssemblyComponentDTO
- Protein
- ProteinDTO
- AffectedGenomicModel
- AffectedGenomicModelDTO
- ResourceDescriptor
- ResourceDescriptorPage
- VocabularyTerm
- Vocabulary
- VocabularyTermSet
- OntologyTerm
- HTPExpressionDatasetAnnotation
- HTPExpressionDatasetAnnotationDTO
- CurationReportGroup
- CurationReport
- BulkLoadGroup
- BulkLoad
range: string
definition:
name: definition
description: The definition of the ontology term. This is a reference to an object
that holds the text description of the term and a collection of URLs that further
define the term.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: definition
owner: NCBITaxonTerm
domain_of:
- VocabularyTerm
- OntologyTerm
range: string
definition_urls:
name: definition_urls
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
multivalued: true
alias: definition_urls
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: string
type:
name: type
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: type
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: uriorcurie
cross_references:
name: cross_references
description: Holds between an object and its CrossReferences.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
aliases:
- xrefs
singular_name: cross_reference
multivalued: true
alias: cross_references
owner: NCBITaxonTerm
domain_of:
- Antibody
- AuthorReference
- GenomicEntity
- GenomeAssembly
- OntologyTerm
- ExternalDataBaseEntity
- GeneInteraction
range: CrossReference
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: NCBITaxonTerm
domain_of:
- VariantDTO
- SequenceTargetingReagent
- SequenceTargetingReagentDTO
- AffectedGenomicModel
- AffectedGenomicModelDTO
- ResourceDescriptor
- VocabularyTerm
- OntologyTerm
- Resource
- Variant
- GeneNomenclatureSet
range: string
required: false
namespace:
name: namespace
description: the namespace of the ontology.
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: namespace
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: string
subsets:
name: subsets
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
multivalued: true
alias: subsets
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: string
secondary_identifiers:
name: secondary_identifiers
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
aliases:
- secondary_ids
multivalued: true
alias: secondary_identifiers
owner: NCBITaxonTerm
domain_of:
- SequenceTargetingReagent
- SequenceTargetingReagentDTO
- Reagent
- ReagentDTO
- OntologyTerm
- Figure
- Image
- ExternalDataBaseEntity
- ExternalDataBaseEntityDTO
range: uriorcurie
ancestors:
name: ancestors
description: The ancestors of this term in the ontology, including the term itself.
This language works well for the majority of use cases, however for a relationship
like "develops_from", ancestors are the terms from which this term develops
(not a true parent/child or ancestor/descendant relationship).
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
multivalued: true
alias: ancestors
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: OntologyTermClosure
descendants:
name: descendants
description: The descendants of this term in the ontology, including the term
itself. This language works well for the majority of use cases, however for
a relationship like "develops_from", ancestors are the terms to which this term
develops into (not a true parent/child or ancestor/descendant relationship).
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
multivalued: true
alias: descendants
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: OntologyTermClosure
child_count:
name: child_count
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: child_count
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: integer
descendant_count:
name: descendant_count
from_schema: https://github.com/alliance-genome/agr_curation_schema/alliance_schema
alias: descendant_count
owner: NCBITaxonTerm
domain_of:
- OntologyTerm
range: integer
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
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: NCBITaxonTerm
domain_of:
- AuditedObject
- AuditedObjectDTO
range: boolean