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Class: GeneExpressionMixin

Description: Observed gene expression intensity, context (site, stage) and associated phenotypic status within which the expression occurs.
classDiagram class GeneExpressionMixin GeneExpressionMixin <|-- GeneToGeneCoexpressionAssociation GeneExpressionMixin <|-- VariantToGeneExpressionAssociation GeneExpressionMixin : expression_site GeneExpressionMixin --|> AnatomicalEntity : expression_site GeneExpressionMixin : phenotypic_state GeneExpressionMixin --|> DiseaseOrPhenotypicFeature : phenotypic_state GeneExpressionMixin : quantifier_qualifier GeneExpressionMixin --|> OntologyClass : quantifier_qualifier GeneExpressionMixin : stage_qualifier GeneExpressionMixin --|> LifeStage : stage_qualifier

Slots

Name Cardinality and Range Inheritance Examples
quantifier_qualifier:
Optional quantitative value indicating degree of expression.
0..1
OntologyClass		 direct
expression_site:
location in which gene or protein expression takes place. May be cell, tissue, or organ. 		0..1
AnatomicalEntity		 direct UBERON:0002037
stage_qualifier:
stage during which gene or protein expression of takes place. 		0..1
LifeStage		 direct UBERON:0000069
phenotypic_state:
in experiments (e.g. gene expression) assaying diseased or unhealthy tissue, the phenotypic state can be put here, e.g. MONDO ID. For healthy tissues, use XXX. 		0..1
DiseaseOrPhenotypicFeature		 direct

Mixin Usage

mixed into description
GeneToGeneCoexpressionAssociation Indicates that two genes are co-expressed, generally under the same conditions.
VariantToGeneExpressionAssociation An association between a variant and expression of a gene (i.e. e-QTL)

LinkML Source

name: gene expression mixin
description: Observed gene expression intensity, context (site, stage) and associated
  phenotypic status within which the expression occurs.
from_schema: https://w3id.org/biolink/biolink-model
mixin: true
slots:
- quantifier qualifier
- expression site
- stage qualifier
- phenotypic state
slot_usage:
  quantifier qualifier:
    name: quantifier qualifier
    description: Optional quantitative value indicating degree of expression.