Comments (4)
Thanks Jason. Sorry for that oversight. I will see if I can convert the queries to use qualified predicates and then will figure out which environment to use for testing. FWIW - when I tested this last week, results were returned.
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Note: I may have spoken too soon on the comment below. If all of the predicates are now represented as biolink:affects
then it might be possible to OR together their constraints to replicate the original predicates shown above.
Interestingly, it does not look like we can fully replicate this query using qualifiers. Mixing qualifiers with different predicates on the same edge is not currently supported in TRAPI. See the TRAPI documentation on qualifier_constraints (which I have copied here for convenience).
qualifier_constraints:
type: array
description: >-
A list of QualifierConstraints that provide nuance to the QEdge.
If multiple QualifierConstraints are provided, there is an OR
relationship between them. If the QEdge has multiple
predicates or if the QNodes that correspond to the subject or
object of this QEdge have multiple categories or multiple
curies, then qualifier_constraints MUST NOT be specified
because these complex use cases are not supported at this time.
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@jdr0887 See updated queries in PR #24. These should now comply with Biolink 3.x. Let me know if there are further issues.
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@sierra-moxon commented:
These eliminated predicates are prime use cases for the qualifier methodology.
Many examples here: https://biolink.github.io/biolink-model/guidelines/association-examples-with-qualifiers.html
and here: https://biolink.github.io/biolink-model/guidelines/reading-a-qualifier-based-statement.html
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Related Issues (20)
- Consistent use of biolink:correlated_with in TRAPI queries and responses from KPs HOT 7
- Identification of use case challenge #2 HOT 11
- Clinical Data Types - Labs - Y3 Prioritization #1 HOT 8
- Clinical Data ARS Use Case - Y3 Prioritization #1 - Clinical x Genetics HOT 4
- May relay pitch HOT 23
- mediKanren Use Case [proposed by Unsecret Agent, NCATS] HOT 2
- Augmentin DILI Use Case [proposed by Exposures Provider] HOT 4
- Clinical Data ARS Use Case - Y3 Prioritization #2 - Drug Target Landscape HOT 14
- Biolink Extension to Support Clinical Data HOT 3
- Clinical Data Modeling - Y3 Prioritization #1 - Cohort Modeling HOT 2
- Clinical Data Modeling - Y3 Prioritization #2 - Biolink Schema/Definition for Cohort HOT 3
- Clinical Data Modeling - Y3 Prioritization #3 - Feature Variable Representation HOT 2
- Clinical Data Modeling - Y3 Prioritization #4 - Clinical Predicate(s)
- Clinical Data Modeling - Y3 Prioritization #5 - Spatiotemporal Modeling
- Vote on Prioritizations/Milestones for Y3 HOT 1
- Data Modeling for likelihood/risk/prediction HOT 1
- TCDC CQS HOT 5
- Biolink definitions for clinical edge attributes
- O&O Clinical_Evidence factor and SRI Annotation Service HOT 1
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