{"id":"https://openalex.org/W2983941894","doi":"https://doi.org/10.1093/database/baz106","title":"Enabling semantic queries across federated bioinformatics databases","display_name":"Enabling semantic queries across federated bioinformatics databases","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2983941894","doi":"https://doi.org/10.1093/database/baz106","mag":"2983941894","pmid":"https://pubmed.ncbi.nlm.nih.gov/31697362"},"language":"en","primary_location":{"id":"doi:10.1093/database/baz106","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz106","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz106/30457488/baz106.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz106/30457488/baz106.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032183252","display_name":"Ana Claudia Sima","orcid":null},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I858936495","display_name":"ZHAW Zurich University of Applied Sciences","ror":"https://ror.org/05pmsvm27","country_code":"CH","type":"education","lineage":["https://openalex.org/I858936495"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Ana Claudia Sima","raw_affiliation_strings":["Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland","institution_ids":["https://openalex.org/I858936495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018439383","display_name":"Tarcisio Mendes de Farias","orcid":"https://orcid.org/0000-0002-3175-5372"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Tarcisio Mendes de Farias","raw_affiliation_strings":["Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland","SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070408124","display_name":"Erich Zbinden","orcid":"https://orcid.org/0000-0002-5222-9638"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I858936495","display_name":"ZHAW Zurich University of Applied Sciences","ror":"https://ror.org/05pmsvm27","country_code":"CH","type":"education","lineage":["https://openalex.org/I858936495"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Erich Zbinden","raw_affiliation_strings":["SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland","institution_ids":["https://openalex.org/I858936495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046692009","display_name":"Maria Anisimova","orcid":"https://orcid.org/0000-0001-8145-7966"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I858936495","display_name":"ZHAW Zurich University of Applied Sciences","ror":"https://ror.org/05pmsvm27","country_code":"CH","type":"education","lineage":["https://openalex.org/I858936495"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Maria Anisimova","raw_affiliation_strings":["SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland","institution_ids":["https://openalex.org/I858936495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085414073","display_name":"M. Gil","orcid":"https://orcid.org/0000-0002-8406-8218"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I858936495","display_name":"ZHAW Zurich University of Applied Sciences","ror":"https://ror.org/05pmsvm27","country_code":"CH","type":"education","lineage":["https://openalex.org/I858936495"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Manuel Gil","raw_affiliation_strings":["SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland","institution_ids":["https://openalex.org/I858936495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069082993","display_name":"Heinz Stockinger","orcid":"https://orcid.org/0000-0003-4666-7719"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Heinz Stockinger","raw_affiliation_strings":["SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074825049","display_name":"Kurt Stockinger","orcid":"https://orcid.org/0000-0003-4034-4812"},"institutions":[{"id":"https://openalex.org/I858936495","display_name":"ZHAW Zurich University of Applied Sciences","ror":"https://ror.org/05pmsvm27","country_code":"CH","type":"education","lineage":["https://openalex.org/I858936495"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Kurt Stockinger","raw_affiliation_strings":["ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"ZHAW Zurich University of Applied Sciences, Obere Kirchgasse 2, 8400 Winterthur Switzerland","institution_ids":["https://openalex.org/I858936495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054250703","display_name":"Marc Robinson\u2010Rechavi","orcid":"https://orcid.org/0000-0002-3437-3329"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Marc Robinson-Rechavi","raw_affiliation_strings":["Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland","SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050068380","display_name":"Christophe Dessimoz","orcid":"https://orcid.org/0000-0002-2170-853X"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["CH","GB"],"is_corresponding":true,"raw_author_name":"Christophe Dessimoz","raw_affiliation_strings":["Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","Department of Computer Science, University College London, Gower St, London WC1E 6BT, UK","Department of Genetics, Evolution, and Environment, University College London, Gower St, London WC1E 6BT, UK","SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Integrative Genomics, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Computer Science, University College London, Gower St, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I45129253"]},{"raw_affiliation_string":"Department of Genetics, Evolution, and Environment, University College London, Gower St, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I45129253"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5018439383","https://openalex.org/A5050068380","https://openalex.org/A5054250703"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I45129253","https://openalex.org/I97565354"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":978,"currency":"EUR","value_usd":1054},"fwci":2.2215,"has_fulltext":false,"cited_by_count":37,"citation_normalized_percentile":{"value":0.8879731,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"2019","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9983999729156494,"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":0.9983999729156494,"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":0.9959999918937683,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9927999973297119,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/sparql","display_name":"SPARQL","score":0.9358839988708496},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8273460268974304},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.750827968120575},{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.6476922035217285},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.5734974145889282},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5577756762504578},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5238492488861084},{"id":"https://openalex.org/keywords/relational-database","display_name":"Relational database","score":0.5045832395553589},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.47907811403274536},{"id":"https://openalex.org/keywords/linked-data","display_name":"Linked data","score":0.47308045625686646},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.43035051226615906},{"id":"https://openalex.org/keywords/semantic-heterogeneity","display_name":"Semantic heterogeneity","score":0.4200969934463501},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3981952667236328},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.3913641571998596},{"id":"https://openalex.org/keywords/ontology-based-data-integration","display_name":"Ontology-based data integration","score":0.37897002696990967},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.298132061958313},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1282804310321808}],"concepts":[{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.9358839988708496},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8273460268974304},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.750827968120575},{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.6476922035217285},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.5734974145889282},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5577756762504578},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5238492488861084},{"id":"https://openalex.org/C5655090","wikidata":"https://www.wikidata.org/wiki/Q192588","display_name":"Relational database","level":2,"score":0.5045832395553589},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.47907811403274536},{"id":"https://openalex.org/C69075417","wikidata":"https://www.wikidata.org/wiki/Q515701","display_name":"Linked data","level":3,"score":0.47308045625686646},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.43035051226615906},{"id":"https://openalex.org/C2778180026","wikidata":"https://www.wikidata.org/wiki/Q18378163","display_name":"Semantic heterogeneity","level":4,"score":0.4200969934463501},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3981952667236328},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.3913641571998596},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.37897002696990967},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.298132061958313},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1282804310321808},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000075403","descriptor_name":"Semantic Web","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000075403","descriptor_name":"Semantic Web","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000075403","descriptor_name":"Semantic Web","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/database/baz106","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz106","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz106/30457488/baz106.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:31697362","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31697362","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:digitalcollection.zhaw.ch:11475/18771","is_oa":true,"landing_page_url":"https://hdl.handle.net/11475/18771","pdf_url":null,"source":{"id":"https://openalex.org/S4306401810","display_name":"Z\u00fcrcher Hochschule f\u00fcr Angewandte Wissenschaften digital collection (Zurich University of Applied Sciences)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I200744771","host_organization_name":"ZHAW Zurich University of Applied Sciences","host_organization_lineage":["https://openalex.org/I200744771"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:iris.unil.ch:iris/232108","is_oa":true,"landing_page_url":"https://iris.unil.ch/handle/iris/232108","pdf_url":null,"source":{"id":"https://openalex.org/S7407055444","display_name":"IRIS","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6836710","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6836710","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"},{"id":"pmh:oai:serval.unil.ch:BIB_ED991CD0F569","is_oa":true,"landing_page_url":"https://serval.unil.ch/notice/serval:BIB_ED991CD0F569","pdf_url":null,"source":{"id":"https://openalex.org/S4306401797","display_name":"SERVAL (Universit\u00e9 de Lausanne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210093590","host_organization_name":"Swiss School of Archaeology in Greece","host_organization_lineage":["https://openalex.org/I4210093590"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database, vol. 2019","raw_type":"info:eu-repo/semantics/submittedVersion"}],"best_oa_location":{"id":"doi:10.1093/database/baz106","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baz106","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baz106/30457488/baz106.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1751534761","display_name":null,"funder_award_id":"150654","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2983941894.pdf"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W86748277","https://openalex.org/W812314648","https://openalex.org/W1519701203","https://openalex.org/W1548934423","https://openalex.org/W1575634047","https://openalex.org/W1603798699","https://openalex.org/W1964409362","https://openalex.org/W1964986019","https://openalex.org/W1971676632","https://openalex.org/W1997130867","https://openalex.org/W2042037135","https://openalex.org/W2058320302","https://openalex.org/W2094108329","https://openalex.org/W2103260426","https://openalex.org/W2106596862","https://openalex.org/W2108798001","https://openalex.org/W2111576850","https://openalex.org/W2113142309","https://openalex.org/W2113310608","https://openalex.org/W2116034137","https://openalex.org/W2118976126","https://openalex.org/W2119803317","https://openalex.org/W2123152121","https://openalex.org/W2131941936","https://openalex.org/W2134469465","https://openalex.org/W2140611297","https://openalex.org/W2149473031","https://openalex.org/W2154139219","https://openalex.org/W2165428180","https://openalex.org/W2248619253","https://openalex.org/W2260667602","https://openalex.org/W2299775049","https://openalex.org/W2418777859","https://openalex.org/W2480868904","https://openalex.org/W2491530509","https://openalex.org/W2522667419","https://openalex.org/W2523955029","https://openalex.org/W2557110550","https://openalex.org/W2558643140","https://openalex.org/W2587722541","https://openalex.org/W2600074498","https://openalex.org/W2748847540","https://openalex.org/W2756463390","https://openalex.org/W2766510537","https://openalex.org/W2783269277","https://openalex.org/W2785380291","https://openalex.org/W2787214411","https://openalex.org/W2790981989","https://openalex.org/W2792450944","https://openalex.org/W2792874817","https://openalex.org/W2795302121","https://openalex.org/W2883904729","https://openalex.org/W2891091669","https://openalex.org/W2915374113","https://openalex.org/W2979792653","https://openalex.org/W4233120011","https://openalex.org/W4233863423","https://openalex.org/W4298050333","https://openalex.org/W6622947441","https://openalex.org/W6631034869","https://openalex.org/W6727317557","https://openalex.org/W6748313029","https://openalex.org/W6756594301"],"related_works":["https://openalex.org/W2397655851","https://openalex.org/W4206764195","https://openalex.org/W2155929612","https://openalex.org/W199330785","https://openalex.org/W2267627180","https://openalex.org/W2402575682","https://openalex.org/W2396236980","https://openalex.org/W2187569332","https://openalex.org/W98016204","https://openalex.org/W602498611"],"abstract_inverted_index":{"MOTIVATION:":[0],"Data":[1,91],"integration":[2],"promises":[3],"to":[4,15,66,218,222],"be":[5,16,140],"one":[6],"of":[7,21,29,75,172,177],"the":[8,19,27,30,36,39,134,168,178,200,210,216,225],"main":[9],"catalysts":[10],"in":[11,137,175,184],"enabling":[12],"new":[13,122],"insights":[14],"drawn":[17],"from":[18,224],"wealth":[20],"biological":[22,50,76],"data":[23,32,60,69,136,158,171,202,211],"available":[24,183],"publicly.":[25],"However,":[26],"heterogeneity":[28],"different":[31,73],"sources,":[33,117],"both":[34],"at":[35],"syntactic":[37],"and":[38,96,108,191],"semantic":[40,123],"level,":[41],"still":[42],"poses":[43],"significant":[44],"challenges":[45],"for":[46,59,125],"achieving":[47],"interoperability":[48],"among":[49,199],"databases.":[51],"RESULTS:":[52],"We":[53,62,130,189],"introduce":[54],"an":[55],"ontology-based":[56],"federated":[57,113],"approach":[58,65],"integration.":[61],"applied":[63],"this":[64],"three":[67,201],"heterogeneous":[68],"stores":[70],"that":[71],"span":[72],"areas":[74],"knowledge:":[77],"(i)":[78],"Bgee,":[79],"a":[80,89,99,121,143,163,185,230],"gene":[81,126],"expression":[82,127],"relational":[83,135],"database;":[84],"(ii)":[85],"Orthologous":[86],"Matrix":[87],"(OMA),":[88],"Hierarchical":[90],"Format":[92],"5":[93],"orthology":[94],"DS;":[95],"(iii)":[97],"UniProtKB,":[98],"Resource":[100],"Description":[101],"Framework":[102],"(RDF)":[103],"store":[104],"containing":[105],"protein":[106],"sequence":[107],"functional":[109],"information.":[110],"To":[111],"enable":[112,219],"queries":[114,208],"across":[115,209],"these":[116,155],"we":[118,214],"first":[119],"defined":[120],"model":[124],"called":[128],"GenEx.":[129],"then":[131],"show":[132],"how":[133],"Bgee":[138,157],"can":[139],"expressed":[141,174],"as":[142],"virtual":[144,197],"RDF":[145,170],"graph,":[146],"instantiating":[147],"GenEx,":[148],"through":[149,162],"dedicated":[150],"relational-to-RDF":[151],"mappings.":[152],"By":[153],"applying":[154],"mappings,":[156],"are":[159],"now":[160],"accessible":[161],"public":[164,186],"SPARQL":[165,187],"endpoint.":[166,188],"Similarly,":[167],"materialized":[169],"OMA,":[173],"terms":[176],"Orthology":[179],"ontology,":[180],"is":[181],"made":[182],"identified":[190],"formally":[192],"described":[193],"intersection":[194],"points":[195],"(i.e.":[196],"links)":[198],"sources.":[203],"These":[204],"allow":[205],"performing":[206],"joint":[207],"stores.":[212],"Finally,":[213],"lay":[215],"groundwork":[217],"nontechnical":[220],"users":[221],"benefit":[223],"integrated":[226],"data,":[227],"by":[228],"providing":[229],"natural":[231],"language":[232],"template-based":[233],"search":[234],"interface.":[235]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":1}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}
