Open cbizon opened 2 months ago
See https://github.com/NCATSTranslator/Feedback/issues/811
Spoke seems to be returning some edges without primary knowledge sources. From the validator:
# CHEBI:3698[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:43755[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:135756[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Drug|biolink:NamedThing|biolink:ChemicalOrDrugOrTreatment]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:8713[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:6541[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:4786[biolink:SmallMolecule|biolink:Drug]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:141521[biolink:SmallMolecule|biolink:Drug]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:9649[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:3011[biolink:SmallMolecule|biolink:Drug]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein] # CHEBI:81005[biolink:SmallMolecule|biolink:Drug]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein]
See https://github.com/NCATSTranslator/Feedback/issues/811
Spoke seems to be returning some edges without primary knowledge sources. From the validator:
CHEBI:8024[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:physically_interacts_with->NCBIGene:1636[biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:GenomicEntity|biolink:Gene|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:OntologyClass|biolink:MacromolecularMachineMixin|biolink:Protein]