https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/Head https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://www.nanopub.org/nschema#hasAssertion https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/assertion https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://www.nanopub.org/nschema#hasProvenance https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/provenance https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://www.nanopub.org/nschema#hasPublicationInfo https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/pubinfo https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.nanopub.org/nschema#Nanopublication https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/assertion https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants http://purl.org/dc/terms/description Lists the sequence variant records observed in a sample ('partid') of the MVIKG knowledge graph, with gene, Sequence Ontology type, effect and review status. The gene-to-sample and gene-to-variant links are read from the variant's own nanopub. Only records signed by a current admin, maintainer or member of the mvikg space count, in their newest non-invalidated version; the review status is the latest npx:approvesOf / npx:disapprovesOf verdict of a current mvikg admin on that version (none: pending). https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants http://purl.org/dc/terms/license https://creativecommons.org/licenses/by/4.0/ https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/kpxl/grlc/grlc-query https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants http://www.w3.org/2000/01/rdf-schema#label Get MVIKG variants of a sample https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants https://w3id.org/kpxl/grlc/endpoint https://w3id.org/np/l/nanopub-query-1.1/repo/full https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants https://w3id.org/kpxl/grlc/sparql prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> prefix dct: <http://purl.org/dc/terms/> prefix np: <http://www.nanopub.org/nschema#> prefix npa: <http://purl.org/nanopub/admin/> prefix npx: <http://purl.org/nanopub/x/> prefix gen: <https://w3id.org/kpxl/gen/terms/> prefix sosa: <http://www.w3.org/ns/sosa/> prefix biolink: <https://w3id.org/biolink/vocab/> prefix mvikg: <http://example.org/mvikg/> prefix obo: <http://purl.obolibrary.org/obo/> select ?variant ?variant_label ?gene ?gene_label ?type ?effect ?status ?np ?np_label where { { select ?variant ?np (sample(?l) as ?vl) (sample(?g) as ?gene) (group_concat(distinct ?tl; separator=', ') as ?type) (sample(?e) as ?effect) (max(?verdict) as ?mv) where { service <https://w3id.org/np/l/nanopub-query-1.1/repo/spaces> { select (group_concat(distinct ?pk; separator=' ') as ?memberKeys) (group_concat(distinct ?apk; separator=' ') as ?adminKeys) where { graph npa:graph { npa:thisRepo npa:hasCurrentSpaceState ?sg . } graph ?sg { ?ri a gen:RoleInstantiation ; npa:forSpace <https://w3id.org/spaces/mvikg> ; npa:hasRoleType ?tier ; npa:forAgent ?agent . filter(?tier in (gen:AdminRole, gen:MaintainerRole, gen:MemberRole)) ?acct a npa:AccountState ; npa:agent ?agent ; npa:pubkey ?pk . bind(if(?tier = gen:AdminRole, ?pk, '') as ?apk) } } } { select distinct ?alias where { { bind(?_partid_iri as ?alias) } union { graph npa:graph { ?cur npx:introduces ?_partid_iri . ?cur npx:supersedes* ?old . ?old npx:introduces ?alias . } } } } graph ?a { ?g sosa:isFeatureOfInterestOf ?alias ; biolink:has_sequence_variant ?variant . ?variant a biolink:SequenceVariant ; dct:isPartOf <https://w3id.org/spaces/mvikg/r/kg> . } graph npa:graph { ?np np:hasAssertion ?a ; npx:introduces ?variant ; dct:created ?date ; npa:hasValidSignatureForPublicKeyHash ?pubkey . filter not exists { ?inv npx:invalidates ?np ; npa:hasValidSignatureForPublicKeyHash ?pubkey . } } filter(contains(?memberKeys, ?pubkey)) optional { graph npa:graph { ?np2 npx:introduces ?variant ; dct:created ?date2 ; npa:hasValidSignatureForPublicKeyHash ?pubkey2 . filter not exists { ?inv2 npx:invalidates ?np2 ; npa:hasValidSignatureForPublicKeyHash ?pubkey2 . } } filter(contains(?memberKeys, ?pubkey2) && concat(str(?date2), '>', str(?np2)) > concat(str(?date), '>', str(?np))) } filter(!bound(?np2)) optional { graph ?a { ?variant rdfs:label ?l } } optional { graph ?a { ?variant mvikg:effect ?e } } optional { graph ?a { ?variant a ?t . filter(?t != biolink:SequenceVariant) } bind(if(?t = obo:SO_0000159, 'deletion', if(?t = obo:SO_0000667, 'insertion', if(?t = obo:SO_0000694, 'SNP', if(?t = obo:SO_0001483, 'SNV', if(?t = obo:SO_0001059, 'sequence alteration', if(?t = obo:SO_1000002, 'substitution', if(?t = obo:SO_1000032, 'delins', if(?t = obo:SO_0002007, 'MNV', replace(replace(str(?t), '^.*[/#]', ''), '_', ':'))))))))) as ?tl) } optional { values ?vpred { npx:approvesOf npx:disapprovesOf } graph ?va { ?vagent ?vpred ?np . } graph npa:graph { ?vnp np:hasAssertion ?va ; dct:created ?vdate ; npa:hasValidSignatureForPublicKeyHash ?vpk . filter not exists { ?vinv npx:invalidates ?vnp ; npa:hasValidSignatureForPublicKeyHash ?vpk . } } filter(contains(?adminKeys, ?vpk)) bind(concat(str(?vdate), '>', if(?vpred = npx:disapprovesOf, 'd', 'a')) as ?verdict) } } group by ?variant ?np } bind(coalesce(str(?vl), replace(str(?variant), '^.*/np/', '')) as ?variant_label) bind(replace(str(?gene), '^.*[/#]', '') as ?gene_label) bind(if(!bound(?mv), '⏳ pending', if(strends(?mv, 'd'), '🚫 rejected', '✅ approved')) as ?status) bind('^' as ?np_label) } order by ?variant_label https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/provenance https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/assertion http://www.w3.org/ns/prov#wasAttributedTo https://orcid.org/0000-0002-1267-0234 https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/pubinfo https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://purl.org/dc/terms/created 2026-11-12T12:26:36.891+01:00 https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://purl.org/dc/terms/creator https://orcid.org/0000-0002-1267-0234 https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://purl.org/dc/terms/license https://creativecommons.org/licenses/by/4.0/ https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://purl.org/nanopub/x/embeds https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/get-mvikg-sample-variants https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc http://www.w3.org/2000/01/rdf-schema#label Get MVIKG variants of a sample https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc https://w3id.org/np/o/ntemplate/wasCreatedFromProvenanceTemplate https://w3id.org/np/RA7lSq6MuK_TIC6JMSHvLtee3lpLoZDOqLJCLXevnrPoU https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc https://w3id.org/np/o/ntemplate/wasCreatedFromPubinfoTemplate https://w3id.org/np/RA-N4_kFxcruvBTlo1yJv29E4SLOXsx5KO_th69PprMrA https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc https://w3id.org/np/o/ntemplate/wasCreatedFromPubinfoTemplate https://w3id.org/np/RACJ58Gvyn91LqCKIO9zu1eijDQIeEff28iyDrJgjSJF8 https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc https://w3id.org/np/o/ntemplate/wasCreatedFromTemplate https://w3id.org/np/RAEFAt-QcFK0ZhqfvlsmS10BnzGJA0xwOICZXkO-ai87k https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/sig http://purl.org/nanopub/x/hasAlgorithm RSA https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/sig http://purl.org/nanopub/x/hasPublicKey MIGfMA0GCSqGSIb3DQEBAQUAA4GNADCBiQKBgQCwUtewGCpT5vIfXYE1bmf/Uqu1ojqnWdYxv+ySO80ul8Gu7m8KoyPAwuvaPj0lvPtHrg000qMmkxzKhYknEjq8v7EerxZNYp5B3/3+5ZpuWOYAs78UnQVjbHSmDdmryr4D4VvvNIiUmd0yxci47dTFUj4DvfHnGd6hVe5+goqdcwIDAQAB https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/sig http://purl.org/nanopub/x/hasSignature nVb2FozcrBmG3c1q8INc9xxGZfzGiGrc95/m88Gd5ccu3Ca2zG/1y5DynFSqzvwu0VxpXYMTLv0Mgdvm9pQlBiQsb1cCzvFnirmhHxNiRArYYZbdwAnpvGIX0wFKCGE5l+uBTrdxdA3hbkDWcoGWuYnSpY8sFfUBDqa37bfAM3U= https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/sig http://purl.org/nanopub/x/hasSignatureTarget https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc https://w3id.org/np/RA721o3bE085lJ5EM5FF70QMUEk1SmOuqbmnf6qKVBAgc/sig http://purl.org/nanopub/x/signedBy https://orcid.org/0000-0002-1267-0234