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Class: MolecularSimilarity

Detailed assessment of molecular-level concordance between model and biological systems.

URI: namo:MolecularSimilarity

classDiagram class MolecularSimilarity click MolecularSimilarity href "../MolecularSimilarity/" NamedThing <|-- MolecularSimilarity click NamedThing href "../NamedThing/" MolecularSimilarity : conserved_genes MolecularSimilarity --> "*" Gene : conserved_genes click Gene href "../Gene/" MolecularSimilarity : correlation_coefficient MolecularSimilarity : data_source MolecularSimilarity : description MolecularSimilarity : differentially_expressed_genes MolecularSimilarity --> "*" Gene : differentially_expressed_genes click Gene href "../Gene/" MolecularSimilarity : id MolecularSimilarity : methodology MolecularSimilarity : name MolecularSimilarity : similarity_score MolecularSimilarity : statistical_significance MolecularSimilarity --> "0..1" StatisticalSignificance : statistical_significance click StatisticalSignificance href "../StatisticalSignificance/" MolecularSimilarity : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
similarity_score 0..1
Float		 Quantitative similarity score (0 direct
correlation_coefficient 0..1
Float		 Pearson correlation coefficient for expression profiles direct
differentially_expressed_genes *
Gene		 List of genes that are differentially expressed in the model system direct
conserved_genes *
Gene		 List of genes with conserved expression patterns between model and target direct
methodology 0..1
String		 Description of experimental methods used for molecular comparison direct
data_source 0..1
String		 Source of molecular data (e direct
statistical_significance 0..1
StatisticalSignificance		 Statistical measures of significance for the molecular similarity 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
StructuredConcordanceResult molecular_similarity range MolecularSimilarity

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: MolecularSimilarity
description: Detailed assessment of molecular-level concordance between model and
  biological systems.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  similarity_score:
    name: similarity_score
    description: Quantitative similarity score (0.0-1.0) based on molecular profiles.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    range: float
  correlation_coefficient:
    name: correlation_coefficient
    description: Pearson correlation coefficient for expression profiles.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    - DoseResponseSimilarity
    range: float
  differentially_expressed_genes:
    name: differentially_expressed_genes
    description: List of genes that are differentially expressed in the model system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    range: Gene
    multivalued: true
    inlined: true
    inlined_as_list: true
  conserved_genes:
    name: conserved_genes
    description: List of genes with conserved expression patterns between model and
      target.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    range: Gene
    multivalued: true
    inlined: true
    inlined_as_list: true
  methodology:
    name: methodology
    description: Description of experimental methods used for molecular comparison.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    - FunctionalAssay
  data_source:
    name: data_source
    description: Source of molecular data (e.g., RNA-seq, proteomics, metabolomics).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
  statistical_significance:
    name: statistical_significance
    description: Statistical measures of significance for the molecular similarity.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - MolecularSimilarity
    range: StatisticalSignificance
    inlined: true

Induced

name: MolecularSimilarity
description: Detailed assessment of molecular-level concordance between model and
  biological systems.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  similarity_score:
    name: similarity_score
    description: Quantitative similarity score (0.0-1.0) based on molecular profiles.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: similarity_score
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    range: float
  correlation_coefficient:
    name: correlation_coefficient
    description: Pearson correlation coefficient for expression profiles.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: correlation_coefficient
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    - DoseResponseSimilarity
    range: float
  differentially_expressed_genes:
    name: differentially_expressed_genes
    description: List of genes that are differentially expressed in the model system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: differentially_expressed_genes
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    range: Gene
    multivalued: true
    inlined: true
    inlined_as_list: true
  conserved_genes:
    name: conserved_genes
    description: List of genes with conserved expression patterns between model and
      target.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: conserved_genes
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    range: Gene
    multivalued: true
    inlined: true
    inlined_as_list: true
  methodology:
    name: methodology
    description: Description of experimental methods used for molecular comparison.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: methodology
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    - FunctionalAssay
    range: string
  data_source:
    name: data_source
    description: Source of molecular data (e.g., RNA-seq, proteomics, metabolomics).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: data_source
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    range: string
  statistical_significance:
    name: statistical_significance
    description: Statistical measures of significance for the molecular similarity.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: statistical_significance
    owner: MolecularSimilarity
    domain_of:
    - MolecularSimilarity
    range: StatisticalSignificance
    inlined: true
  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: MolecularSimilarity
    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: MolecularSimilarity
    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: MolecularSimilarity
    domain_of:
    - NamedThing
    range: string
  type:
    name: type
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    designates_type: true
    alias: type
    owner: MolecularSimilarity
    domain_of:
    - NamedThing
    range: string