[ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/Head", "@graph": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw", "http://www.nanopub.org/nschema#hasAssertion": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/assertion" } ], "http://www.nanopub.org/nschema#hasProvenance": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/provenance" } ], "http://www.nanopub.org/nschema#hasPublicationInfo": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/pubinfo" } ], "@type": [ "http://www.nanopub.org/nschema#Nanopublication" ] } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/assertion", "@graph": [ { "@id": "http://example.org/mvikg/alt", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "alternate allele" } ] }, { "@id": "http://example.org/mvikg/effect", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "variant effect" } ] }, { "@id": "http://example.org/mvikg/evidenceText", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "evidence text" } ] }, { "@id": "http://example.org/mvikg/frequencyUnit", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "frequency unit" } ] }, { "@id": "http://example.org/mvikg/frequencyValue", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "frequency value" } ] }, { "@id": "http://example.org/mvikg/length", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "variant length" } ] }, { "@id": "http://example.org/mvikg/ref", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "reference allele" } ] }, { "@id": "http://purl.org/dc/terms/isPartOf", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "is part of" } ] }, { "@id": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "is a" } ] }, { "@id": "http://www.w3.org/2000/01/rdf-schema#label", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "label" } ] }, { "@id": "http://www.w3.org/ns/sosa/isFeatureOfInterestOf", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "is feature of interest of" } ] }, { "@id": "https://w3id.org/biolink/vocab/Gene", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "gene" } ] }, { "@id": "https://w3id.org/biolink/vocab/SequenceVariant", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "sequence variant" } ] }, { "@id": "https://w3id.org/biolink/vocab/end_coordinate", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "end coordinate" } ] }, { "@id": "https://w3id.org/biolink/vocab/has_sequence_variant", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "has sequence variant" } ] }, { "@id": "https://w3id.org/biolink/vocab/start_coordinate", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "start coordinate" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/alt", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "alternate allele" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/effect", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "variant effect" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/endCoordinate", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "end coordinate (variant position)" } ], "https://w3id.org/np/o/ntemplate/hasDatatype": [ { "@id": "http://www.w3.org/2001/XMLSchema#integer" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/evidenceText", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "evidence text (quote/description from the source)" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/freqUnit", "@type": [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder", "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "frequency unit" } ], "https://w3id.org/np/o/ntemplate/possibleValue": [ { "@id": "http://qudt.org/vocab/unit/PERCENT" }, { "@id": "http://qudt.org/vocab/unit/UNITLESS" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/freqValue", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "frequency value" } ], "https://w3id.org/np/o/ntemplate/hasDatatype": [ { "@id": "http://www.w3.org/2001/XMLSchema#decimal" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/gene", "@type": [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder", "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "the gene this variant belongs to (search existing genes, or enter an NCBI Gene ID)" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi": [ { "@value": "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=gene&retmode=json&id=" }, { "@value": "https://w3id.org/np/l/nanopub-query-1.1/api/RAom4OoQ8U2K6A629YRXKo9-XU-ZJM7-KZs1h11OD6c1w/find-things?type=https://w3id.org/biolink/vocab/Gene" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/length", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "variant length (free text — not all source rows give a clean integer)" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/ref", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "reference allele" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/sample", "@type": [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder", "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "the sample this gene was observed in (declared via the sample-context template)" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi": [ { "@value": "https://w3id.org/np/l/nanopub-query-1.1/api/RAom4OoQ8U2K6A629YRXKo9-XU-ZJM7-KZs1h11OD6c1w/find-things?type=http://www.w3.org/ns/sosa/Sample" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/soType", "@type": [ "https://w3id.org/np/o/ntemplate/ExternalUriPlaceholder", "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "sequence variant type (Sequence Ontology)" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi": [ { "@value": "https://www.ebi.ac.uk/ols4/api/select?ontology=so&fieldList=iri,label,description&q=" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st01", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/sample" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/ns/sosa/isFeatureOfInterestOf" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/gene" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st02", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/spaces/mvikg/r/kg" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://purl.org/dc/terms/isPartOf" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant", "@type": [ "https://w3id.org/np/o/ntemplate/IntroducedResource", "https://w3id.org/np/o/ntemplate/LocalResource" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "this sequence variant" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st08", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/biolink/vocab/Gene" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/gene" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st09", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "https://w3id.org/biolink/vocab/has_sequence_variant" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/gene" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st10", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/biolink/vocab/SequenceVariant" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st11", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variantName" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/2000/01/rdf-schema#label" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variantName", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "variant name/notation (e.g. T77I)" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st12", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/soType" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st13", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/effect" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/effect" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st14", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/length" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/length" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st15", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/alt" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/alt" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st16", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/ref" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/ref" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st17", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/startCoordinate" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "https://w3id.org/biolink/vocab/start_coordinate" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/variant" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/startCoordinate", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "start coordinate (variant position)" } ], "https://w3id.org/np/o/ntemplate/hasDatatype": [ { "@id": "http://www.w3.org/2001/XMLSchema#integer" } ] }, { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/st18", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAxh65i-lelMIAK3By-aVOElaEqosPBU-B4Um1Dy7Sgkw/endCoordinate" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "https://w3id.org/biolink/vocab/end_coordinate" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": 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