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Slot: genetic_context

The genetic context under which this qualification applies. May specify genes, mutation types, zygosity, complementation groups, or complex genotypes.

URI: dismech:slot/genetic_context Alias: genetic_context

Applicable Classes

Name Description Modifies Slot
PhenotypeContext A context-specific annotation qualifying how a phenotype manifests under part... no
Pathophysiology no

Properties

Type and Range

Property Value
Range GeneticContext
Domain Of PhenotypeContext, Pathophysiology

Cardinality and Requirements

Property Value

Comments

  • On a Pathophysiology node, variant_origin: SOMATIC (or GERMLINE_AND_SOMATIC) additionally marks that node as where the transforming lesion occurred. For a neoplasm entry that makes it the origin node, and the disease's cell of origin is read from the same node's cell_types -- which is why there is no cell_of_origin: slot (design decisions 3d, docs/cancer-cell-of-origin.md).

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/monarch-initiative/dismech

Mappings

Mapping Type Mapped Value
self dismech:genetic_context
native dismech:genetic_context

LinkML Source

name: genetic_context
description: The genetic context under which this qualification applies. May specify
  genes, mutation types, zygosity, complementation groups, or complex genotypes.
comments:
- 'On a Pathophysiology node, `variant_origin: SOMATIC` (or GERMLINE_AND_SOMATIC)
  additionally marks that node as where the transforming lesion occurred. For a neoplasm
  entry that makes it the origin node, and the disease''s cell of origin is read from
  the same node''s `cell_types` -- which is why there is no `cell_of_origin:` slot
  (design decisions 3d, docs/cancer-cell-of-origin.md).'
from_schema: https://w3id.org/monarch-initiative/dismech
rank: 1000
alias: genetic_context
domain_of:
- PhenotypeContext
- Pathophysiology
range: GeneticContext
inlined: true