Class: Gene

A gene entity with identifiers and expression information.

classDiagram class Gene click Gene href "../Gene/" NamedThing <|-- Gene click NamedThing href "../NamedThing/" Gene : adjusted_p_value Gene : description Gene : ensembl_id Gene : entrez_id Gene : fold_change Gene : gene_symbol Gene : id Gene : name Gene : p_value Gene : type

Inheritance

NamedThing
- Gene

Slots

Name	Cardinality and Range	Description	Inheritance
gene_symbol	0..1 String	Standard gene symbol (e	direct
ensembl_id	0..1 String	Ensembl gene identifier	direct
entrez_id	0..1 Integer	NCBI Entrez gene identifier	direct
fold_change	0..1 Float	Fold change in expression compared to control or reference	direct
p_value	0..1 Float	Statistical p-value for differential expression	direct
adjusted_p_value	0..1 Float	Multiple testing corrected p-value	direct
id	1 Uriorcurie	A unique identifier for a thing	NamedThing
name	0..1 String	A human-readable name for a thing	NamedThing
description	0..1 String	A human-readable description for a thing	NamedThing
type	0..1 String		NamedThing

Usages

used by	used in	type	used
MolecularSimilarity	differentially_expressed_genes	range	Gene
MolecularSimilarity	conserved_genes	range	Gene

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/monarch-initiative/namo

Mappings

Mapping Type	Mapped Value
self	namo:Gene
native	namo:Gene

LinkML Source

Direct

name: Gene
description: A gene entity with identifiers and expression information.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  gene_symbol:
    name: gene_symbol
    description: Standard gene symbol (e.g., HGNC symbol for human genes).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
  ensembl_id:
    name: ensembl_id
    description: Ensembl gene identifier.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
  entrez_id:
    name: entrez_id
    description: NCBI Entrez gene identifier.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
    range: integer
  fold_change:
    name: fold_change
    description: Fold change in expression compared to control or reference.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
    range: float
  p_value:
    name: p_value
    description: Statistical p-value for differential expression.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
    - StatisticalSignificance
    - EnrichmentStatistics
    range: float
  adjusted_p_value:
    name: adjusted_p_value
    description: Multiple testing corrected p-value.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - Gene
    - StatisticalSignificance
    range: float

Induced

name: Gene
description: A gene entity with identifiers and expression information.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  gene_symbol:
    name: gene_symbol
    description: Standard gene symbol (e.g., HGNC symbol for human genes).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: gene_symbol
    owner: Gene
    domain_of:
    - Gene
    range: string
  ensembl_id:
    name: ensembl_id
    description: Ensembl gene identifier.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: ensembl_id
    owner: Gene
    domain_of:
    - Gene
    range: string
  entrez_id:
    name: entrez_id
    description: NCBI Entrez gene identifier.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: entrez_id
    owner: Gene
    domain_of:
    - Gene
    range: integer
  fold_change:
    name: fold_change
    description: Fold change in expression compared to control or reference.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: fold_change
    owner: Gene
    domain_of:
    - Gene
    range: float
  p_value:
    name: p_value
    description: Statistical p-value for differential expression.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: p_value
    owner: Gene
    domain_of:
    - Gene
    - StatisticalSignificance
    - EnrichmentStatistics
    range: float
  adjusted_p_value:
    name: adjusted_p_value
    description: Multiple testing corrected p-value.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: adjusted_p_value
    owner: Gene
    domain_of:
    - Gene
    - StatisticalSignificance
    range: float
  id:
    name: id
    description: A unique identifier for a thing
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    slot_uri: schema:identifier
    identifier: true
    alias: id
    owner: Gene
    domain_of:
    - NamedThing
    - Reference
    range: uriorcurie
    required: true
  name:
    name: name
    description: A human-readable name for a thing
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    slot_uri: schema:name
    alias: name
    owner: Gene
    domain_of:
    - NamedThing
    range: string
  description:
    name: description
    description: A human-readable description for a thing
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    slot_uri: schema:description
    alias: description
    owner: Gene
    domain_of:
    - NamedThing
    range: string
  type:
    name: type
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    designates_type: true
    alias: type
    owner: Gene
    domain_of:
    - NamedThing
    range: string