{"id":"https://openalex.org/W2977145668","doi":"https://doi.org/10.1007/s00354-019-00074-y","title":"Interconnection of Biological Knowledge Using NikkajiRDF and Interlinking Ontology for Biological Concepts","display_name":"Interconnection of Biological Knowledge Using NikkajiRDF and Interlinking Ontology for Biological Concepts","publication_year":2019,"publication_date":"2019-09-27","ids":{"openalex":"https://openalex.org/W2977145668","doi":"https://doi.org/10.1007/s00354-019-00074-y","mag":"2977145668"},"language":"en","primary_location":{"id":"doi:10.1007/s00354-019-00074-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00354-019-00074-y","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00354-019-00074-y.pdf","source":{"id":"https://openalex.org/S165364243","display_name":"New Generation Computing","issn_l":"0288-3635","issn":["0288-3635","1882-7055"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"New Generation Computing","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007/s00354-019-00074-y.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035350400","display_name":"Tatsuya Kushida","orcid":"https://orcid.org/0000-0002-0784-4113"},"institutions":[{"id":"https://openalex.org/I4210086780","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210086780"]},{"id":"https://openalex.org/I4210165074","display_name":"Information and Mathematical Science and Bioinformatics (Japan)","ror":"https://ror.org/05rgpb984","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210165074"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Tatsuya Kushida","raw_affiliation_strings":["National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan"],"raw_orcid":"https://orcid.org/0000-0002-0784-4113","affiliations":[{"raw_affiliation_string":"National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan","institution_ids":["https://openalex.org/I4210165074","https://openalex.org/I4210086780"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051448264","display_name":"Kouji Kozaki","orcid":"https://orcid.org/0000-0003-4578-4980"},"institutions":[{"id":"https://openalex.org/I189513530","display_name":"Osaka Electro-Communication University","ror":"https://ror.org/056bksm23","country_code":"JP","type":"education","lineage":["https://openalex.org/I189513530"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kouji Kozaki","raw_affiliation_strings":["Faculty of Information and Communication Engineering, Osaka Electro-Communication University, Osaka, Japan"],"raw_orcid":"https://orcid.org/0000-0003-4578-4980","affiliations":[{"raw_affiliation_string":"Faculty of Information and Communication Engineering, Osaka Electro-Communication University, Osaka, Japan","institution_ids":["https://openalex.org/I189513530"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101551686","display_name":"Takahiro Kawamura","orcid":"https://orcid.org/0000-0002-2765-6232"},"institutions":[{"id":"https://openalex.org/I1323638106","display_name":"National Agriculture and Food Research Organization","ror":"https://ror.org/023v4bd62","country_code":"JP","type":"government","lineage":["https://openalex.org/I1323638106"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Takahiro Kawamura","raw_affiliation_strings":["National Agriculture and Food Research Organization, Ibaraki, Japan"],"raw_orcid":"https://orcid.org/0000-0002-2765-6232","affiliations":[{"raw_affiliation_string":"National Agriculture and Food Research Organization, Ibaraki, Japan","institution_ids":["https://openalex.org/I1323638106"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068056695","display_name":"Yuka Tateisi","orcid":"https://orcid.org/0000-0002-3813-5782"},"institutions":[{"id":"https://openalex.org/I4210086780","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210086780"]},{"id":"https://openalex.org/I4210165074","display_name":"Information and Mathematical Science and Bioinformatics (Japan)","ror":"https://ror.org/05rgpb984","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210165074"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yuka Tateisi","raw_affiliation_strings":["National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan"],"raw_orcid":"https://orcid.org/0000-0002-3813-5782","affiliations":[{"raw_affiliation_string":"National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan","institution_ids":["https://openalex.org/I4210165074","https://openalex.org/I4210086780"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063942302","display_name":"Yasunori Yamamoto","orcid":"https://orcid.org/0000-0002-6943-6887"},"institutions":[{"id":"https://openalex.org/I4210158934","display_name":"Research Organization of Information and Systems","ror":"https://ror.org/04p4e8t29","country_code":"JP","type":"facility","lineage":["https://openalex.org/I1319490839","https://openalex.org/I4210158934"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yasunori Yamamoto","raw_affiliation_strings":["Database Center for Life Science, Research Organization of Information and Systems, Chiba, Japan"],"raw_orcid":"https://orcid.org/0000-0002-6943-6887","affiliations":[{"raw_affiliation_string":"Database Center for Life Science, Research Organization of Information and Systems, Chiba, Japan","institution_ids":["https://openalex.org/I4210158934"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5104355283","display_name":"Toshihisa Takagi","orcid":null},"institutions":[{"id":"https://openalex.org/I4210086780","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19","country_code":"JP","type":"government","lineage":["https://openalex.org/I4210086780"]},{"id":"https://openalex.org/I4210165074","display_name":"Information and Mathematical Science and Bioinformatics (Japan)","ror":"https://ror.org/05rgpb984","country_code":"JP","type":"company","lineage":["https://openalex.org/I4210165074"]},{"id":"https://openalex.org/I76257533","display_name":"Toyama University of International Studies","ror":"https://ror.org/03373tb44","country_code":"JP","type":"education","lineage":["https://openalex.org/I76257533"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Toshihisa Takagi","raw_affiliation_strings":["National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan","Toyama University of International Studies, Toyama, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Bioscience Database Center, Japan Science and Technology Agency, 5-3, Yonbancho, Chiyoda-ku, Tokyo, 102-8666, Japan","institution_ids":["https://openalex.org/I4210165074","https://openalex.org/I4210086780"]},{"raw_affiliation_string":"Toyama University of International Studies, Toyama, Japan","institution_ids":["https://openalex.org/I76257533"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5035350400"],"corresponding_institution_ids":["https://openalex.org/I4210086780","https://openalex.org/I4210165074"],"apc_list":{"value":2490,"currency":"EUR","value_usd":3090},"apc_paid":{"value":2490,"currency":"EUR","value_usd":3090},"fwci":0.4274,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.62669307,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"37","issue":"4","first_page":"525","last_page":"549"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965000152587891,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9951000213623047,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.7235803604125977},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7012820839881897},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.6925471425056458},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.6531437635421753},{"id":"https://openalex.org/keywords/identifier","display_name":"Identifier","score":0.6114873290061951},{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.5776098370552063},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5140472650527954},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.4329402446746826},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.38293391466140747},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.33155351877212524},{"id":"https://openalex.org/keywords/knowledge-management","display_name":"Knowledge management","score":0.3224397301673889},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.2810932993888855},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1664486527442932},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12494879961013794},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.124542236328125}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7235803604125977},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7012820839881897},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.6925471425056458},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.6531437635421753},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.6114873290061951},{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.5776098370552063},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5140472650527954},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.4329402446746826},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.38293391466140747},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.33155351877212524},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.3224397301673889},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.2810932993888855},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1664486527442932},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12494879961013794},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.124542236328125},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/s00354-019-00074-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00354-019-00074-y","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00354-019-00074-y.pdf","source":{"id":"https://openalex.org/S165364243","display_name":"New Generation Computing","issn_l":"0288-3635","issn":["0288-3635","1882-7055"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"New Generation Computing","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1007/s00354-019-00074-y","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00354-019-00074-y","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00354-019-00074-y.pdf","source":{"id":"https://openalex.org/S165364243","display_name":"New Generation Computing","issn_l":"0288-3635","issn":["0288-3635","1882-7055"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"New Generation Computing","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"},{"id":"https://openalex.org/F4320334789","display_name":"Japan Science and Technology Agency","ror":"https://ror.org/00097mb19"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2977145668.pdf","grobid_xml":"https://content.openalex.org/works/W2977145668.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W91108659","https://openalex.org/W1779441601","https://openalex.org/W1852306145","https://openalex.org/W1971184063","https://openalex.org/W1986223165","https://openalex.org/W2019543926","https://openalex.org/W2040022355","https://openalex.org/W2052250375","https://openalex.org/W2063149926","https://openalex.org/W2080133951","https://openalex.org/W2087563523","https://openalex.org/W2101747459","https://openalex.org/W2109545121","https://openalex.org/W2110279208","https://openalex.org/W2110732896","https://openalex.org/W2111299816","https://openalex.org/W2118976126","https://openalex.org/W2119412782","https://openalex.org/W2129370330","https://openalex.org/W2130629641","https://openalex.org/W2131660156","https://openalex.org/W2140611297","https://openalex.org/W2143392414","https://openalex.org/W2144086069","https://openalex.org/W2144427809","https://openalex.org/W2146538435","https://openalex.org/W2153225416","https://openalex.org/W2159482845","https://openalex.org/W2165428180","https://openalex.org/W2247923051","https://openalex.org/W2302501749","https://openalex.org/W2543839061","https://openalex.org/W2552246398","https://openalex.org/W2562531153","https://openalex.org/W2611894836","https://openalex.org/W2767370427","https://openalex.org/W2767891136","https://openalex.org/W2767914218","https://openalex.org/W2773787581","https://openalex.org/W2783038509","https://openalex.org/W2885809354","https://openalex.org/W2899915536","https://openalex.org/W2900871501","https://openalex.org/W2916047525","https://openalex.org/W2948019310","https://openalex.org/W3085073370","https://openalex.org/W4241410814","https://openalex.org/W4246066782","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W2098932404","https://openalex.org/W3040692138","https://openalex.org/W2964648167","https://openalex.org/W2156467546","https://openalex.org/W4381571608","https://openalex.org/W4306399392","https://openalex.org/W4297818780","https://openalex.org/W2166817550","https://openalex.org/W2748109040","https://openalex.org/W2936116675"],"abstract_inverted_index":{"Abstract":[0],"We":[1,62],"investigated":[2],"the":[3,19,137,140,147],"interconnection":[4],"on":[5,52,77],"knowledge":[6,34],"of":[7,21],"biological":[8,10,99,121,129],"molecules,":[9],"phenomena,":[11,122],"and":[12,24,29,44,58,81,100,104,118,123,134,143,155],"diseases":[13,32,107],"to":[14,94,136,146],"efficiently":[15],"collect":[16],"information":[17,51,76,97],"regarding":[18,98],"functions":[20],"chemical":[22,56,101,110],"compounds":[23,57],"gene":[25,78,157],"products,":[26,79,158],"roles,":[27],"applications,":[28,103],"involvements":[30,105],"in":[31,106,127,160],"using":[33],"graphs":[35],"(KGs)":[36],"developed":[37,114],"from":[38,116],"Resource":[39],"Description":[40],"Framework":[41],"(RDF)":[42],"data":[43,49],"ontologies.":[45],"NikkajiRDF":[46,64],"linked":[47],"open":[48],"provide":[50],"approximately":[53,73],"3.5":[54],"million":[55],"694":[59],"application":[60],"examples.":[61],"integrated":[63],"with":[65],"Interlinking":[66],"Ontology":[67],"for":[68,108],"Biological":[69],"Concepts":[70],"(IOBC),":[71],"including":[72],"80,000":[74],"concepts,":[75],"drugs,":[80],"diseases.":[82,162],"Using":[83,139],"IOBC\u2019s":[84],"ontological":[85],"structure,":[86],"we":[87,113,149],"confirmed":[88],"that":[89],"this":[90],"integration":[91],"enabled":[92],"us":[93],"infer":[95],"new":[96],"functions,":[102],"5038":[109],"compounds.":[111],"Furthermore,":[112],"KGs":[115,142],"IOBC":[117],"added":[119],"protein,":[120],"disease":[124],"identifiers":[125],"used":[126],"major":[128],"databases:":[130],"UniProt,":[131],"Gene":[132],"Ontology,":[133],"MeSH":[135],"KGs.":[138],"extended":[141],"federated":[144],"search":[145],"DisGeNET,":[148],"discovered":[150],"more":[151],"than":[152],"60":[153],"chemicals":[154],"700":[156],"involved":[159],"32":[161]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
