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
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
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
EntityToFeatureOrDiseaseQualifiersMixin	Qualifiers for entity to disease or phenotype associations.	no
FeatureOrDiseaseQualifiersToEntityMixin	Qualifiers for disease or phenotype to entity associations.	no

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
- chemical affects gene association
- gene affects chemical association
- entity to feature or disease qualifiers mixin
- feature or disease qualifiers to entity mixin
range: string