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Slot: classified_as

Taxonomic classification of this organism. Narrowed from the global OntologyClass range (defined on the slot itself) to NcbiTaxon, since organism identity at NMDC is anchored to NCBI Taxonomy. Per #3016 — the broader pattern is to narrow classified_as to NcbiTaxon on all organism-oriented classes via slot_usage.

URI: nmdc_sub_schema:classified_as Alias: classified_as

Applicable Classes

Name Description Modifies Slot
IsolateInterface Metadata for microbial isolate samples submitted to NMDC no

Properties

  • Range: String

  • Required: True

  • Regex pattern: NCBITaxon:\d+

Examples

Value
NCBITaxon:562
NCBITaxon:1392

Comments

  • Taxonomy-oriented uses (e.g. on Organism) should point to NcbiTaxon instances. OrganismSample reaches taxonomy indirectly via expected_organism.classified_as. The global range stays OntologyClass; narrowing to NcbiTaxon via slot_usage is tracked in #3016.

See Also

Identifier and Mapping Information

Schema Source

Mappings

Mapping Type Mapped Value
self nmdc_sub_schema:classified_as
native nmdc_sub_schema:classified_as
narrow biolink:in_taxon

LinkML Source

name: classified_as
description: 'Taxonomic classification of this organism. Narrowed from the global
  OntologyClass range (defined on the slot itself) to NcbiTaxon, since organism identity
  at NMDC is anchored to NCBI Taxonomy. Per #3016 — the broader pattern is to narrow
  `classified_as` to `NcbiTaxon` on all organism-oriented classes via slot_usage.'
comments:
- 'Taxonomy-oriented uses (e.g. on Organism) should point to NcbiTaxon instances.
  OrganismSample reaches taxonomy indirectly via expected_organism.classified_as.
  The global range stays OntologyClass; narrowing to NcbiTaxon via slot_usage is tracked
  in #3016.'
examples:
- value: NCBITaxon:562
- value: NCBITaxon:1392
from_schema: https://example.com/nmdc_submission_schema
see_also:
- https://github.com/microbiomedata/nmdc-schema/issues/2959
narrow_mappings:
- biolink:in_taxon
rank: 111
alias: classified_as
domain_of:
- IsolateInterface
slot_group: organism_section
range: string
required: true
multivalued: false
pattern: NCBITaxon:\d+
structured_pattern:
  syntax: NCBITaxon:\d+
  interpolated: false