[ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/Head", "@graph": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw", "http://www.nanopub.org/nschema#hasAssertion": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/assertion" } ], "http://www.nanopub.org/nschema#hasProvenance": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/provenance" } ], "http://www.nanopub.org/nschema#hasPublicationInfo": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/pubinfo" } ], "@type": [ "http://www.nanopub.org/nschema#Nanopublication" ] } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/assertion", "@graph": [ { "@id": "http://example.org/mvikg/antibiotic", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "antibiotic" } ] }, { "@id": "http://example.org/mvikg/antibioticAroId", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "antibiotic ARO id" } ] }, { "@id": "http://example.org/mvikg/breakpointStandard", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "breakpoint standard" } ] }, { "@id": "http://example.org/mvikg/comparedTo", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "compared to" } ] }, { "@id": "http://example.org/mvikg/isAssociatedWithVariant", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "is associated with variant" } ] }, { "@id": "http://example.org/mvikg/micUnit", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "MIC unit" } ] }, { "@id": "http://example.org/mvikg/micValue", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "MIC value" } ] }, { "@id": "http://example.org/mvikg/platform", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "platform" } ] }, { "@id": "http://example.org/mvikg/susceptibilityCall", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "susceptibility call" } ] }, { "@id": "http://example.org/mvikg/typingMethod", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "typing method" } ] }, { "@id": "http://purl.obolibrary.org/obo/ARO_3004300", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "intermediate antimicrobial phenotype (I)" } ] }, { "@id": "http://purl.obolibrary.org/obo/ARO_3004301", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "resistant antimicrobial phenotype (R)" } ] }, { "@id": "http://purl.obolibrary.org/obo/ARO_3004302", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "susceptible antimicrobial phenotype (S)" } ] }, { "@id": "http://purl.org/dc/terms/description", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "description" } ] }, { "@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#comment", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "comment" } ] }, { "@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/isResultOf", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "is result of" } ] }, { "@id": "https://w3id.org/biolink/vocab/PhenotypicFeature", "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "phenotypic feature" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/antibiotic", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "antibiotic or drug class tested, as named in the paper" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/antibioticAroId", "@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": "ARO (Antibiotic Resistance Ontology) term for the antibiotic, only if unambiguous" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi": [ { "@value": "https://www.ebi.ac.uk/ols4/api/select?ontology=aro&fieldList=iri,label,description&q=" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/comment", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "comment (only when the paper's language was genuinely ambiguous for this result)" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/comparedTo", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "compared to (the control/reference strain the result was compared against)" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/contextSentence", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "exact sentence from the paper reporting this result" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/micUnit", "@type": [ "https://w3id.org/np/o/ntemplate/RestrictedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "MIC unit" } ], "https://w3id.org/np/o/ntemplate/possibleValue": [ { "@id": "http://qudt.org/vocab/unit/MOL-PER-L" }, { "@id": "http://qudt.org/vocab/unit/MicroGM-PER-MilliL" }, { "@id": "http://qudt.org/vocab/unit/MicroMOL-PER-L" }, { "@id": "http://qudt.org/vocab/unit/MilliGM-PER-L" }, { "@id": "http://qudt.org/vocab/unit/MilliGM-PER-MilliL" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/micValue", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "MIC numeric value" } ], "https://w3id.org/np/o/ntemplate/hasDatatype": [ { "@id": "http://www.w3.org/2001/XMLSchema#decimal" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype", "@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 antibiogram observation" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotypeDescription", "@type": [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "result description (prose, e.g. \"MIC increased 8-fold vs wild-type\")" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/platform", "@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": "named instrument/panel used for typing (ARO term, e.g. Vitek, Sensititre)" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi": [ { "@value": "https://www.ebi.ac.uk/ols4/api/select?ontology=aro&fieldList=iri,label,description&q=" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/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 antibiogram result was observed on (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/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st01", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/sample" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://www.w3.org/ns/sosa/isResultOf" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st02", "@type": [ "https://w3id.org/np/o/ntemplate/GroupedStatement", "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "https://w3id.org/np/o/ntemplate/hasStatement": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st03" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st03", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/variant" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/isAssociatedWithVariant" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/variant", "@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 specific sequence variant this result is tied to, if the paper says so (declared via the gene-variant-phenotype 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=https://w3id.org/biolink/vocab/SequenceVariant" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st04", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/biolink/vocab/PhenotypicFeature" } ], "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/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st05", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotypeDescription" } ], "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/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st06", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/contextSentence" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://purl.org/dc/terms/description" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st07", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/comparedTo" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/comparedTo" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st08", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/antibiotic" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/antibiotic" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st09", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/antibioticAroId" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/antibioticAroId" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st10", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/susceptibilityCall" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": "http://example.org/mvikg/susceptibilityCall" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/phenotype" } ], "@type": [ "https://w3id.org/np/o/ntemplate/OptionalStatement" ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/susceptibilityCall", "@type": [ "https://w3id.org/np/o/ntemplate/RestrictedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "susceptibility call (ARO antimicrobial phenotype term)" } ], "https://w3id.org/np/o/ntemplate/possibleValue": [ { "@id": "http://purl.obolibrary.org/obo/ARO_3004300" }, { "@id": "http://purl.obolibrary.org/obo/ARO_3004301" }, { "@id": "http://purl.obolibrary.org/obo/ARO_3004302" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st11", "@type": [ "https://w3id.org/np/o/ntemplate/GroupedStatement", "https://w3id.org/np/o/ntemplate/OptionalStatement" ], "https://w3id.org/np/o/ntemplate/hasStatement": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st12" }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st13" } ] }, { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/st12", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object": [ { "@id": "https://w3id.org/np/RAG-syFZIrIC-Gf34f_JoDsiBF1tyMzm2boOaL4xjT4nw/micValue" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate": [ { "@id": 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