Skip to content

Class: PhenotypeOverlap

Comparison of phenotypic manifestations between model and biological systems.

URI: namo:PhenotypeOverlap

classDiagram class PhenotypeOverlap click PhenotypeOverlap href "../PhenotypeOverlap/" NamedThing <|-- PhenotypeOverlap click NamedThing href "../NamedThing/" PhenotypeOverlap : biological_specific_phenotypes PhenotypeOverlap --> "*" Term : biological_specific_phenotypes click Term href "../Term/" PhenotypeOverlap : description PhenotypeOverlap : id PhenotypeOverlap : model_specific_phenotypes PhenotypeOverlap --> "*" Term : model_specific_phenotypes click Term href "../Term/" PhenotypeOverlap : name PhenotypeOverlap : phenotype_ontology PhenotypeOverlap : phenotype_similarity_score PhenotypeOverlap : shared_phenotypes PhenotypeOverlap --> "*" Term : shared_phenotypes click Term href "../Term/" PhenotypeOverlap : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
phenotype_similarity_score 0..1
Float		 Quantitative score (0 direct
shared_phenotypes *
Term		 List of phenotypes present in both model and biological system direct
model_specific_phenotypes *
Term		 List of phenotypes present only in the model system direct
biological_specific_phenotypes *
Term		 List of phenotypes present only in the biological system direct
phenotype_ontology 0..1
String		 Ontology used for phenotype classification (e 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 phenotype_overlap range PhenotypeOverlap

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: PhenotypeOverlap
description: Comparison of phenotypic manifestations between model and biological
  systems.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  phenotype_similarity_score:
    name: phenotype_similarity_score
    description: Quantitative score (0.0-1.0) representing phenotypic similarity.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - PhenotypeOverlap
    range: float
  shared_phenotypes:
    name: shared_phenotypes
    description: List of phenotypes present in both model and biological system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  model_specific_phenotypes:
    name: model_specific_phenotypes
    description: List of phenotypes present only in the model system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  biological_specific_phenotypes:
    name: biological_specific_phenotypes
    description: List of phenotypes present only in the biological system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  phenotype_ontology:
    name: phenotype_ontology
    description: Ontology used for phenotype classification (e.g., HPO, MP).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    domain_of:
    - PhenotypeOverlap

Induced

name: PhenotypeOverlap
description: Comparison of phenotypic manifestations between model and biological
  systems.
from_schema: https://w3id.org/monarch-initiative/namo
is_a: NamedThing
attributes:
  phenotype_similarity_score:
    name: phenotype_similarity_score
    description: Quantitative score (0.0-1.0) representing phenotypic similarity.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: phenotype_similarity_score
    owner: PhenotypeOverlap
    domain_of:
    - PhenotypeOverlap
    range: float
  shared_phenotypes:
    name: shared_phenotypes
    description: List of phenotypes present in both model and biological system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: shared_phenotypes
    owner: PhenotypeOverlap
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  model_specific_phenotypes:
    name: model_specific_phenotypes
    description: List of phenotypes present only in the model system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: model_specific_phenotypes
    owner: PhenotypeOverlap
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  biological_specific_phenotypes:
    name: biological_specific_phenotypes
    description: List of phenotypes present only in the biological system.
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: biological_specific_phenotypes
    owner: PhenotypeOverlap
    domain_of:
    - PhenotypeOverlap
    range: Term
    multivalued: true
    inlined: true
    inlined_as_list: true
  phenotype_ontology:
    name: phenotype_ontology
    description: Ontology used for phenotype classification (e.g., HPO, MP).
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    alias: phenotype_ontology
    owner: PhenotypeOverlap
    domain_of:
    - PhenotypeOverlap
    range: string
  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: PhenotypeOverlap
    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: PhenotypeOverlap
    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: PhenotypeOverlap
    domain_of:
    - NamedThing
    range: string
  type:
    name: type
    from_schema: https://w3id.org/monarch-initiative/namo
    rank: 1000
    designates_type: true
    alias: type
    owner: PhenotypeOverlap
    domain_of:
    - NamedThing
    range: string