diff --git a/backend/src/monarch_py/utils/association_type_mappings.yaml b/backend/src/monarch_py/utils/association_type_mappings.yaml index 1e4e70d94..ff9c13bc2 100644 --- a/backend/src/monarch_py/utils/association_type_mappings.yaml +++ b/backend/src/monarch_py/utils/association_type_mappings.yaml @@ -80,11 +80,22 @@ category: "biolink:GenotypeToDiseaseAssociation" subject_category: "biolink:Genotype" object_category: "biolink:Disease" -- subject_label: Medical Action - object_label: Medical Action - category: "biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" - # Note: subject_category/object_category omitted - this association uses disease_context_qualifier - # and requires special 1-hop handling that isn't yet implemented in the entity grid +# Drug indications / treatments. Combines MEDIC (biolink:treats, FDA-approved, +# text-mined) and CTD (biolink:treats_or_applied_or_studied_to_treat, curated), +# which carry different association categories, into one section via the +# multivalued category criterion. Shown as "Indications" on a drug/chemical page +# and "Treatments" on a disease/phenotype page. +- key: drug_indications + subject_label: Indications + object_label: Treatments + category: + - "biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" + - "biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation" + subject_category: + - "biolink:ChemicalEntity" + object_category: + - "biolink:Disease" + - "biolink:PhenotypicFeature" - subject_label: Variant to Phenotype object_label: Variant to Phenotype category: "biolink:VariantToPhenotypicFeatureAssociation" diff --git a/backend/tests/fixtures/association_counts.py b/backend/tests/fixtures/association_counts.py index c26f39fd8..4d0c4920f 100644 --- a/backend/tests/fixtures/association_counts.py +++ b/backend/tests/fixtures/association_counts.py @@ -3,4 +3,4 @@ @pytest.fixture def association_counts(): - return {'items': [{'label': 'Disease Model', 'count': 246, 'key': 'biolink:GenotypeToDiseaseAssociation', 'category': 'biolink:GenotypeToDiseaseAssociation', 'count_direct': 14, 'count_with_orthologs': None}, {'label': 'Disease to Phenotype', 'count': 4247, 'key': 'biolink:DiseaseToPhenotypicFeatureAssociation', 'category': 'biolink:DiseaseToPhenotypicFeatureAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Causal Gene', 'count': 133, 'key': 'biolink:CausalGeneToDiseaseAssociation', 'category': 'biolink:CausalGeneToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Correlated Gene', 'count': 156, 'key': 'biolink:CorrelatedGeneToDiseaseAssociation', 'category': 'biolink:CorrelatedGeneToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Variant to Disease', 'count': 701, 'key': 'biolink:VariantToDiseaseAssociation', 'category': 'biolink:VariantToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Medical Action', 'count': 6, 'key': 'biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation', 'category': 'biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Cases', 'count': 136, 'key': 'biolink:CaseToDiseaseAssociation', 'category': 'biolink:CaseToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}]} + return {'items': [{'label': 'Disease Model', 'count': 246, 'key': 'biolink:GenotypeToDiseaseAssociation', 'category': 'biolink:GenotypeToDiseaseAssociation', 'count_direct': 14, 'count_with_orthologs': None}, {'label': 'Disease to Phenotype', 'count': 4247, 'key': 'biolink:DiseaseToPhenotypicFeatureAssociation', 'category': 'biolink:DiseaseToPhenotypicFeatureAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Causal Gene', 'count': 133, 'key': 'biolink:CausalGeneToDiseaseAssociation', 'category': 'biolink:CausalGeneToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Correlated Gene', 'count': 156, 'key': 'biolink:CorrelatedGeneToDiseaseAssociation', 'category': 'biolink:CorrelatedGeneToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Variant to Disease', 'count': 701, 'key': 'biolink:VariantToDiseaseAssociation', 'category': 'biolink:VariantToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Treatments', 'count': 6, 'key': 'drug_indications', 'category': 'biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation', 'count_direct': 0, 'count_with_orthologs': None}, {'label': 'Cases', 'count': 136, 'key': 'biolink:CaseToDiseaseAssociation', 'category': 'biolink:CaseToDiseaseAssociation', 'count_direct': 0, 'count_with_orthologs': None}]} diff --git a/backend/tests/fixtures/association_counts_query.py b/backend/tests/fixtures/association_counts_query.py index c55c0ebcc..e27136bc4 100644 --- a/backend/tests/fixtures/association_counts_query.py +++ b/backend/tests/fixtures/association_counts_query.py @@ -3,4 +3,4 @@ @pytest.fixture def association_counts_query(): - return {'q': '*:*', 'rows': 20, 'start': 0, 'facet': True, 'facet_min_count': 1, 'facet_fields': [], 'facet_queries': ['(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND subject:"MONDO:0020121"', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")'], 'filter_queries': ['subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121" OR object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121"'], 'facet_mincount': 1, 'query_fields': None, 'def_type': 'edismax', 'q_op': 'AND', 'mm': '100%', 'boost': None, 'sort': None, 'hl': False} + return {'q': '*:*', 'rows': 20, 'start': 0, 'facet': True, 'facet_min_count': 1, 'facet_fields': [], 'facet_queries': ['(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND subject:"MONDO:0020121"', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND subject:"MONDO:0020121"', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")'], 'filter_queries': ['subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121" OR object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121"'], 'facet_mincount': 1, 'query_fields': None, 'def_type': 'edismax', 'q_op': 'AND', 'mm': '100%', 'boost': None, 'sort': None, 'hl': False} diff --git a/backend/tests/fixtures/association_counts_response.py b/backend/tests/fixtures/association_counts_response.py index ed8cab2d4..6028472c2 100644 --- a/backend/tests/fixtures/association_counts_response.py +++ b/backend/tests/fixtures/association_counts_response.py @@ -3,4 +3,4 @@ @pytest.fixture def association_counts_response(): - return {'responseHeader': {'QTime': 2, 'params': {'facet.query': ['(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND subject:"MONDO:0020121"', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND subject:"MONDO:0020121"', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND subject:"MONDO:0020121"', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND subject:"MONDO:0020121"', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND subject:"MONDO:0020121"', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND subject:"MONDO:0020121"', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")', '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")', '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")'], 'mm': '100%', 'q': '*:*', 'defType': 'edismax', 'facet_min_count': '1', 'hl': 'false', 'start': '0', 'q.op': 'AND', 'fq': 'subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121" OR object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121"', 'facet.mincount': '1', 'rows': '20', 'facet': 'true'}}, 'response': {'num_found': 6213, 'start': 0, 'docs': [{'id': 'uuid:b545af16-a828-423a-a1c6-2b8828ef3efb', 'predicate': 'biolink:has_disease', 'category': 'biolink:CaseToDiseaseAssociation', 'agent_type': 'manual_agent', 'knowledge_level': 'observation', 'primary_knowledge_source': 'infores:phenopacket-store', 'file_source': 'phenopacket_ingest_edges', 'provided_by': 'phenopacket_ingest_edges', 'publications': ['PMID:10939567'], 'onset_qualifier': 'P4Y', 'subject': 'phenopacket.store:LMNA.PMID_10939567_Patient_Spo69', 'object': 'MONDO:0021569', 'original_object': 'OMIM:181350', 'evidence_count': 1, 'grouping_key': 'phenopacket.store:LMNA.PMID_10939567_Patient_Spo69||biolink:has_disease|MONDO:0021569', 'subject_label': 'Patient Spo69', 'subject_category': 'biolink:Case', 'subject_namespace': 'phenopacket.store', 'object_label': 'Emery-Dreifuss muscular dystrophy 2, autosomal dominant', 'object_category': 'biolink:Disease', 'object_namespace': 'MONDO', 'object_closure': ['MONDO:0005267', 'MONDO:0100547', 'MONDO:7770009', 'MONDO:0020336', 'MONDO:0015151', 'MONDO:0016333', 'MONDO:7770008', 'MONDO:0000429', 'MONDO:0020121', 'MONDO:0019056', 'MONDO:0000426', 'MONDO:0016830', 'MONDO:0000001', 'MONDO:0005217', 'MONDO:0016106', 'MONDO:0005336', 'MONDO:0003847', 'MONDO:0700096', 'MONDO:0000591', 'MONDO:0005071', 'MONDO:0100545', 'MONDO:0003939', 'MONDO:0004994', 'MONDO:7770006', 'MONDO:0700223', 'MONDO:0005021', 'MONDO:0021106', 'MONDO:0004995', 'MONDO:0020120', 'MONDO:0100546', 'MONDO:0021569', 'MONDO:0016971', 'MONDO:0002081'], 'object_closure_label': ['autosomal genetic disease', 'familial cardiomyopathy', 'limb-girdle muscular dystrophy', 'hereditary skeletal muscle disorder', 'skeletal muscle disorder', 'dilated cardiomyopathy', 'laminopathy', 'cardiomyopathy', 'muscular dystrophy, limb-girdle, autosomal dominant', 'familial dilated cardiomyopathy', 'disease', 'progressive muscular dystrophy', 'hereditary disease', 'heart disorder', 'neuromuscular disease', 'hereditary neurological disease', 'muscle tissue disorder', 'cardiogenetic disease', 'disease of genetic or genomic mechanism', 'disease by etiologic mechanism', 'hereditary neuromuscular disease', 'Emery-Dreifuss muscular dystrophy 2, autosomal dominant', 'muscular dystrophy', 'autosomal dominant disease', 'Emery-Dreifuss muscular dystrophy', 'myopathy', 'cardiovascular disorder', 'disease by body system or component', 'musculoskeletal system disorder', 'autosomal dominant Emery-Dreifuss muscular dystrophy', 'nervous system disorder', 'human disease', 'intrinsic cardiomyopathy'], 'highlighting': None}, {'id': 'uuid:880e1e5f-f624-48ca-ab0a-7bbd32271138', 'predicate': 'biolink:has_disease', 'category': 'biolink:CaseToDiseaseAssociation', 'agent_type': 'manual_agent', 'knowledge_level': 'observation', 'primary_knowledge_source': 'infores:phenopacket-store', 'file_source': 'phenopacket_ingest_edges', 'provided_by': 'phenopacket_ingest_edges', 'publications': ['PMID:10939567'], 'onset_qualifier': 'P2Y', 'subject': 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AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 14, '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121")': 0, '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 4247, '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (subject:"MONDO:0020121" OR subject_closure:"MONDO:0020121")': 0, '(category:"biolink:DiseaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Disease" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToPhenotypicFeatureAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:PairwiseGeneToGeneInteraction" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToPathwayAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToExpressionSiteAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:AnatomicalEntity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GeneToGeneHomologyAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:ChemicalToPathwayAssociation" AND subject_category:"biolink:ChemicalEntity" AND object_category:"biolink:Pathway") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToMolecularActivityAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:MolecularActivity") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToCellularComponentAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:CellularComponent") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:MacromolecularMachineToBiologicalProcessAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:BiologicalProcess") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:CausalGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 133, '(category:"biolink:CorrelatedGeneToDiseaseAssociation" AND subject_category:"biolink:Gene" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 156, '(category:"biolink:VariantToGeneAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:VariantToDiseaseAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 701, '(category:"biolink:GenotypeToPhenotypicFeatureAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToDiseaseAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 246, '((category:"biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation" OR category:"biolink:ChemicalEntityToDiseaseOrPhenotypicFeatureAssociation") AND subject_category:"biolink:ChemicalEntity" AND (object_category:"biolink:Disease" OR object_category:"biolink:PhenotypicFeature")) AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 6, '(category:"biolink:VariantToPhenotypicFeatureAssociation" AND subject_category:"biolink:SequenceVariant" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToGeneAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:GenotypeToVariantAssociation" AND subject_category:"biolink:Genotype" AND object_category:"biolink:SequenceVariant") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:CaseToPhenotypicFeatureAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:PhenotypicFeature") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0, '(category:"biolink:CaseToDiseaseAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Disease") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 136, '(category:"biolink:CaseToGeneAssociation" AND subject_category:"biolink:Case" AND object_category:"biolink:Gene") AND (object:"MONDO:0020121" OR object_closure:"MONDO:0020121" OR disease_context_qualifier:"MONDO:0020121" OR disease_context_qualifier_closure:"MONDO:0020121")': 0}}, 'highlighting': {}} diff --git a/docs/sources-manifest.yaml b/docs/sources-manifest.yaml index 44125e734..fab869a8f 100644 --- a/docs/sources-manifest.yaml +++ b/docs/sources-manifest.yaml @@ -45,6 +45,9 @@ sources: - repo: monarch-initiative/maxo-annotation-ingest branch: main filename: maxo.md + - repo: monarch-initiative/medic-ingest + branch: main + filename: medic.md - repo: monarch-initiative/mmrrc-ingest branch: main filename: mmrrc.md diff --git a/frontend/src/composables/use-association-categories.ts b/frontend/src/composables/use-association-categories.ts index 906ef6707..6b3da703b 100644 --- a/frontend/src/composables/use-association-categories.ts +++ b/frontend/src/composables/use-association-categories.ts @@ -3,9 +3,8 @@ import { startCase } from "lodash"; import { TRAVERSE_ORTHOLOG_CATEGORIES } from "@/api/associations"; import type { Node } from "@/api/model"; -const HIDDEN_CATEGORIES = new Set([ - "biolink:ChemicalOrDrugOrTreatmentToDiseaseOrPhenotypicFeatureAssociation", -]); +/** section keys (ac.key) to hide from node pages */ +const HIDDEN_CATEGORIES = new Set([]); export function useAssociationCategories(node: Node) { const options = computed(() => { diff --git a/frontend/src/pages/node/AssociationsTable.vue b/frontend/src/pages/node/AssociationsTable.vue index 9d4cb52b9..e582f0f4b 100644 --- a/frontend/src/pages/node/AssociationsTable.vue +++ b/frontend/src/pages/node/AssociationsTable.vue @@ -232,6 +232,7 @@ import { import { getBreadcrumbs } from "@/pages/node/AssociationsSummary.vue"; import SectionAssociationDetails from "@/pages/node/SectionAssociationDetails.vue"; import { getAgentTypeMeta } from "@/util/agentType"; +import { isPredicateFilterable } from "@/util/predicateFilterConfig"; import { taxonFieldFor } from "@/util/taxonFilterConfig"; import { fieldFor } from "@/util/typeConfig"; @@ -246,6 +247,8 @@ type Props = { search: string; /** selected taxon labels to filter by */ taxonFilters?: string[]; + /** selected predicates to filter by */ + predicateFilters?: string[]; }; const props = defineProps(); @@ -264,6 +267,10 @@ const emit = defineEmits<{ e: "taxon-options", options: { id: string; label: string; count: number }[], ): void; + ( + e: "predicate-options", + options: { id: string; label: string; count: number }[], + ): void; }>(); const shouldTraverseOrthologs = computed(() => @@ -273,16 +280,33 @@ const shouldTraverseOrthologs = computed(() => /** the single taxon field to facet/filter on for this category */ const taxonField = computed(() => taxonFieldFor(props.category.id)); -/** facet fields to request when taxon filtering is enabled */ -const facetFields = computed(() => - taxonField.value ? [taxonField.value] : undefined, +/** whether this section offers a predicate filter */ +const predicateFilterable = computed(() => + isPredicateFilterable(props.category.id), ); -/** build filter queries from selected taxon labels */ +/** facet fields to request for the enabled filters */ +const facetFields = computed(() => { + const fields: string[] = []; + if (taxonField.value) fields.push(taxonField.value); + if (predicateFilterable.value) fields.push("predicate"); + return fields.length ? fields : undefined; +}); + +/** build filter queries from the selected taxon and predicate filters */ const filterQueries = computed(() => { - if (!props.taxonFilters?.length || !taxonField.value) return undefined; - const clauses = props.taxonFilters.map((t) => `${taxonField.value}:"${t}"`); - return [clauses.join(" OR ")]; + const queries: string[] = []; + if (props.taxonFilters?.length && taxonField.value) { + queries.push( + props.taxonFilters.map((t) => `${taxonField.value}:"${t}"`).join(" OR "), + ); + } + if (props.predicateFilters?.length) { + queries.push( + props.predicateFilters.map((p) => `predicate:"${p}"`).join(" OR "), + ); + } + return queries.length ? queries : undefined; }); /** track last emitted taxon options to avoid redundant emits */ @@ -313,6 +337,44 @@ function emitTaxonOptions(facetFieldsData?: FacetField[]) { emit("taxon-options", options); } +/** track last emitted predicate options to avoid redundant emits */ +let lastPredicateOptionsKey = ""; + +/** + * Emit predicate options from the union of the direct and inferred datasets' + * predicate facets, so the filter toggle reflects the whole section regardless + * of the active tab. (A predicate can appear in one set but not the other — + * e.g. biolink:treats in the direct set while the weaker CTD predicate only + * shows up in the inferred/all set — and the checkbox must not depend on which + * tab loads first.) + */ +function emitPredicateOptions() { + if (!predicateFilterable.value) return; + + /** see emitTaxonOptions: only build options from unfiltered queries */ + if (props.predicateFilters?.length) return; + + const counts = new Map(); + for (const data of [directData.value, allData.value]) { + const field = data?.facet_fields?.find((f) => f.label === "predicate"); + for (const fv of field?.facet_values ?? []) { + if (!fv.label) continue; + counts.set(fv.label, Math.max(counts.get(fv.label) ?? 0, fv.count ?? 0)); + } + } + if (!counts.size) return; + + const options = [...counts.entries()] + .map(([label, count]) => ({ id: label, label, count })) + .sort((a, b) => b.count - a.count); + + const key = JSON.stringify(options); + if (key === lastPredicateOptionsKey) return; + lastPredicateOptionsKey = key; + + emit("predicate-options", options); +} + function openModal(association: DirectionalAssociation) { selectedAssociation.value = association; showModal.value = true; @@ -582,16 +644,26 @@ watch([perPage, sort, start], async () => { } }); -/** refetch when taxon filters change (compare by value, not reference) */ +/** + * refetch when a filter changes (compare by value, not reference). Both the + * direct and inferred/all datasets are refetched so either tab reflects the + * current filter — otherwise switching tabs would show the other dataset's + * mount-time, unfiltered result (e.g. the inferred treatments tab not matching + * the indications checkbox). + */ watch( () => JSON.stringify(props.taxonFilters ?? []), async () => { start.value = 0; - if (props.direct.id === "true") { - await fetchDirect(); - } else { - await fetchAll(); - } + await Promise.all([fetchDirect(), fetchAll()]); + }, +); + +watch( + () => JSON.stringify(props.predicateFilters ?? []), + async () => { + start.value = 0; + await Promise.all([fetchDirect(), fetchAll()]); }, ); @@ -600,13 +672,25 @@ onMounted(async () => { await Promise.all([fetchDirect(), fetchAll()]); }); -/** emit taxon options whenever data changes */ +/** emit taxon options from the active dataset whenever it changes */ watch( () => props.direct.id === "true" ? directData.value?.facet_fields : allData.value?.facet_fields, - (facetFieldsData) => emitTaxonOptions(facetFieldsData), + (facetFieldsData) => { + emitTaxonOptions(facetFieldsData); + }, + { immediate: true }, +); + +/** + * emit predicate options from BOTH datasets (union) so the filter toggle is + * independent of which tab is active or loads first + */ +watch( + () => [directData.value?.facet_fields, allData.value?.facet_fields], + () => emitPredicateOptions(), { immediate: true }, ); diff --git a/frontend/src/pages/node/SectionAssociationDetails.vue b/frontend/src/pages/node/SectionAssociationDetails.vue index bc0c193ac..23822313e 100644 --- a/frontend/src/pages/node/SectionAssociationDetails.vue +++ b/frontend/src/pages/node/SectionAssociationDetails.vue @@ -48,6 +48,14 @@ + + {{ startCase(association.knowledge_level) }} + + {{ association.primary_knowledge_source }} @@ -79,6 +87,42 @@ + + +
+ {{ formatRole(source.resource_role) }}: + {{ source.resource_id }} + + ← {{ source.upstream_resource_ids.join(", ") }} + +
+
+
+ + + + {{ agg }} + + + {{ association.provided_by_link?.id || association.provided_by }} @@ -97,6 +141,61 @@ + + {{ association.original_predicate }} + + + + +
+ {{ qualifier.label }}: {{ qualifier.value }} +
+
+
+ + + +
+ Count: {{ association.has_count }} +
+
+ Total: {{ association.has_total }} +
+
+ Percentage: {{ association.has_percentage }} +
+
+ Quotient: {{ association.has_quotient }} +
+
+
+ + + {{ association.FDA_adverse_event_level }} + + + + Yes + + import { computed, onMounted, watch } from "vue"; +import { startCase } from "lodash"; import type { DirectionalAssociation, Node } from "@/api/model"; import AppDetail from "@/components/AppDetail.vue"; import AppDetails from "@/components/AppDetails.vue"; @@ -127,6 +227,7 @@ import AppPredicateBadge from "@/components/AppPredicateBadge.vue"; import { useSourceVersions } from "@/composables/use-source-versions"; import { scrollTo } from "@/router"; import { getAgentTypeMeta } from "@/util/agentType"; +import { parseRetrievalSources } from "@/util/retrievalSources"; type Props = { /** current node */ @@ -148,6 +249,47 @@ const sourceVersion = computed(() => props.association ? versionForEdge(props.association) : null, ); +/** parse the nested retrieval-source provenance chain (JSON-encoded) */ +const retrievalSources = computed(() => + parseRetrievalSources(props.association?.sources), +); + +/** humanize a retrieval-source role, e.g. "primary_knowledge_source" */ +const formatRole = (role?: string) => (role ? startCase(role) : "Source"); + +/** present qualifier values, preferring labels over raw ids */ +const qualifierRows = computed(() => { + const a = props.association; + const rows: { label: string; value: string }[] = []; + if (!a) return rows; + const add = (label: string, value?: string | null) => { + if (value) rows.push({ label, value }); + }; + add("Frequency", a.frequency_qualifier_label || a.frequency_qualifier); + add("Onset", a.onset_qualifier_label || a.onset_qualifier); + add("Sex", a.sex_qualifier_label || a.sex_qualifier); + add("Stage", a.stage_qualifier_label || a.stage_qualifier); + add( + "Disease context", + a.disease_context_qualifier_label || a.disease_context_qualifier, + ); + add("Object specialization", a.object_specialization_qualifier); + (a.qualifiers ?? []).forEach((qualifier) => add("Qualifier", qualifier)); + return rows; +}); + +/** whether any frequency/count representation is present */ +const hasFrequencyData = computed(() => { + const a = props.association; + return ( + a != null && + (a.has_count != null || + a.has_total != null || + a.has_percentage != null || + a.has_quotient != null) + ); +}); + /** scroll details section into view */ async function scrollIntoView() { scrollTo("#association-details"); @@ -186,4 +328,19 @@ onMounted(scrollIntoView); color: $gray; font-size: 0.9em; } + +.retrieval-source { + display: flex; + flex-wrap: wrap; + align-items: baseline; + gap: 0 0.5em; +} + +.retrieval-source .role { + color: $gray; +} + +.retrieval-source .upstream { + color: $gray; +} diff --git a/frontend/src/pages/node/SectionAssociations.vue b/frontend/src/pages/node/SectionAssociations.vue index df79f3b53..d3fc6db34 100644 --- a/frontend/src/pages/node/SectionAssociations.vue +++ b/frontend/src/pages/node/SectionAssociations.vue @@ -71,6 +71,16 @@ @change="(value) => onTaxonFilterChange(String(category.id), value)" /> + +
@@ -119,6 +133,7 @@ import { computed, ref } from "vue"; import type { Node } from "@/api/model"; import AppAssociationTabs from "@/components/AppAssociationTabs.vue"; import AppButton from "@/components/AppButton.vue"; +import AppCheckbox from "@/components/AppCheckbox.vue"; import AppNodeBadge from "@/components/AppNodeBadge.vue"; import AppSelectMulti from "@/components/AppSelectMulti.vue"; import type { Options as MultiSelectOptions } from "@/components/AppSelectMulti.vue"; @@ -127,6 +142,10 @@ import { useAssociationCategories } from "@/composables/use-association-categori import AssociationsTable from "@/pages/node/AssociationsTable.vue"; import SectionCasePhenotypeGrid from "@/pages/node/SectionCasePhenotypeGrid.vue"; import SectionPathograph from "@/pages/node/SectionPathograph.vue"; +import { + expandLabelFor, + predicateFilterState, +} from "@/util/predicateFilterConfig"; import { sectionTitle } from "@/util/sectionTitles"; import { tabLabel } from "@/util/tabText"; import { isTaxonFilterable } from "@/util/taxonFilterConfig"; @@ -180,6 +199,50 @@ const selectedTaxonLabels = (categoryId: string): string[] => { return selected.map((opt) => opt.id); }; +/** + * predicate filter state per category. Filterable sections (e.g. + * drug_indications) default to their strong predicate and offer a checkbox to + * include the weaker, investigational relationship. + */ +const predicateOptionsByCategory = ref>({}); +const includeInvestigationalByCategory = ref>({}); + +/** + * Toggle the investigational filter. Pin the currently-active tab first so the + * re-filter can't move it: including investigational edges changes the direct + * count, which would otherwise flip the default direct/inferred tab and jump + * the user's view. If the user has already picked a tab, it's pinned already. + */ +const onIncludeInvestigationalChange = (categoryId: string, value: boolean) => { + if (selectedTabs.value[categoryId] === undefined) { + selectedTabs.value[categoryId] = defaultTab(categoryId); + } + includeInvestigationalByCategory.value[categoryId] = value; +}; + +const onPredicateOptions = ( + categoryId: string, + options: { id: string; label: string; count: number }[], +) => { + predicateOptionsByCategory.value[categoryId] = options; +}; + +/** derive the predicate-filter state (toggle visibility + scoped predicates) */ +const predicateFilterFor = (categoryId: string) => + predicateFilterState( + categoryId, + (predicateOptionsByCategory.value[categoryId] ?? []).map((opt) => opt.id), + includeInvestigationalByCategory.value[categoryId] ?? false, + ); + +/** whether both the default predicate and a weaker one are present */ +const showInvestigationalToggle = (categoryId: string): boolean => + predicateFilterFor(categoryId).showToggle; + +/** selected predicate ids to pass to AssociationsTable (empty = no filter) */ +const selectedPredicateIds = (categoryId: string): string[] => + predicateFilterFor(categoryId).filterIds; + const { options: categoryOptions } = useAssociationCategories(props.node); // parent