Slot: qualified_predicate

Description: Predicate to be used in an association when subject and object qualifiers are present and the full reading of the statement requires a qualification to the predicate in use in order to refine or increase the specificity of the full statement reading. This qualifier holds a relationship to be used instead of that expressed by the primary predicate, in a ‘full statement’ reading of the association, where qualifier-based semantics are included. This is necessary only in cases where the primary predicate does not work in a full statement reading.

Notes: to express the statement that “Chemical X causes increased expression of Gene Y”, the core triple is read using the fields subject:ChemX, predicate:affects, object:GeneY . . . and the full statement is read using the fields subject:ChemX, qualified_predicate:causes, object:GeneY, object_aspect: expression, object_direction:increased. The predicate ‘affects’ is needed for the core triple reading, but does not make sense in the full statement reading (because “Chemical X affects increased expression of Gene Y'' is not what we mean to say here: it causes increased expression of Gene Y)

Domain: Association
Range: String

Inheritance

• association_slot
  • qualifier
    • qualified_predicate

Applicable Classes

Name	Description	Modifies Slot
FeatureOrDiseaseQualifiersToEntityMixin	Qualifiers for disease or phenotype to entity associations.	no
EntityToFeatureOrDiseaseQualifiersMixin	Qualifiers for entity to disease or phenotype associations.	no
GeneRegulatesGeneAssociation	Describes a regulatory relationship between two genes or gene products.	yes
PredicateMapping	A deprecated predicate mapping object contains the deprecated predicate and an example of the rewiring that should be done to use a qualified statement in its place.	no
ChemicalAffectsGeneAssociation	Describes an effect that a chemical has on a gene or gene product (e.g. an impact of on its abundance, activity,localization, processing, expression, etc.)	yes
GeneAffectsChemicalAssociation	Describes an effect that a gene or gene product has on a chemical entity (e.g. an impact of on its abundance, activity, localization, processing, transport, etc.)	yes

LinkML Source

name: qualified predicate
description: Predicate to be used in an association when subject and object qualifiers
  are present and the full reading of the statement requires a qualification to the
  predicate in use in order to refine or increase the specificity of the full statement
  reading.  This qualifier holds a relationship to be used instead of that expressed
  by the primary predicate, in a ‘full statement’ reading of the association, where
  qualifier-based semantics are included.  This is necessary only in cases where the
  primary predicate does not work in a full statement reading.
notes:
- 'to express the statement that “Chemical X causes increased expression of Gene Y”,
  the core triple is read using the fields subject:ChemX, predicate:affects, object:GeneY
  . . . and the full statement is read using the fields subject:ChemX, qualified_predicate:causes,
  object:GeneY, object_aspect: expression, object_direction:increased. The predicate
  ‘affects’ is needed for the core triple reading, but does not make sense in the
  full statement reading  (because “Chemical X affects increased expression of Gene
  Y'''' is not what we mean to say here: it causes increased expression of Gene Y)'
from_schema: https://w3id.org/biolink/biolink-model
is_a: qualifier
domain: association
alias: qualified_predicate
domain_of:
- predicate mapping
- gene regulates gene association
- chemical affects gene association
- gene affects chemical association
- entity to feature or disease qualifiers mixin
- feature or disease qualifiers to entity mixin
range: string