{"id":"https://openalex.org/W2895689867","doi":"https://doi.org/10.1093/nar/gky876","title":"Updates in Rhea: SPARQLing biochemical reaction data","display_name":"Updates in Rhea: SPARQLing biochemical reaction data","publication_year":2018,"publication_date":"2018-09-27","ids":{"openalex":"https://openalex.org/W2895689867","doi":"https://doi.org/10.1093/nar/gky876","mag":"2895689867","pmid":"https://pubmed.ncbi.nlm.nih.gov/30272209"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gky876","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky876","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D596/27436440/gky876.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Nucleic Acids Research","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/nar/article-pdf/47/D1/D596/27436440/gky876.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5086334945","display_name":"Thierry Lombardot","orcid":"https://orcid.org/0000-0003-4157-0029"},"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":"Thierry Lombardot","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091324355","display_name":"Anne Morgat","orcid":"https://orcid.org/0000-0002-1216-2969"},"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":"Anne Morgat","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077863600","display_name":"Kristian B. Axelsen","orcid":"https://orcid.org/0000-0003-3889-2879"},"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":"Kristian B Axelsen","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067959898","display_name":"Lucila Aimo","orcid":"https://orcid.org/0000-0003-0943-6401"},"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":"Lucila Aimo","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028177121","display_name":"Nevila Hyka\u2010Nouspikel","orcid":"https://orcid.org/0000-0001-7855-209X"},"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":"Nevila Hyka-Nouspikel","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077024139","display_name":"Anne Niknejad","orcid":"https://orcid.org/0000-0003-3308-6245"},"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":"Anne Niknejad","raw_affiliation_strings":["Vital-IT Group, SIB Swiss Institute of Bioinformatics, Quartier Sorge, B\u00e2timent G\u00e9nopode, CH-1015 Lausanne, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Vital-IT Group, SIB Swiss Institute of Bioinformatics, Quartier Sorge, B\u00e2timent G\u00e9nopode, CH-1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091039507","display_name":"Alexandr Ignatchenko","orcid":"https://orcid.org/0000-0002-6083-941X"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alex Ignatchenko","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065825020","display_name":"Ioannis X\u00e9narios","orcid":"https://orcid.org/0000-0002-3413-6841"},"institutions":[{"id":"https://openalex.org/I114457229","display_name":"University of Geneva","ror":"https://ror.org/01swzsf04","country_code":"CH","type":"education","lineage":["https://openalex.org/I114457229"]},{"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":"Ioannis Xenarios","raw_affiliation_strings":["Center for Integrative Genomics, University of Lausanne, CH-1015 Lausanne, Switzerland","Department of Biochemistry, University of Geneva, CH-1211 Geneva, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Integrative Genomics, University of Lausanne, CH-1015 Lausanne, Switzerland","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"Department of Biochemistry, University of Geneva, CH-1211 Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089027967","display_name":"Elisabeth Coudert","orcid":"https://orcid.org/0000-0001-8314-404X"},"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":"Elisabeth Coudert","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055073392","display_name":"Nicole Redaschi","orcid":"https://orcid.org/0000-0001-8890-2268"},"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":"Nicole Redaschi","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090916579","display_name":"Alan Bridge","orcid":"https://orcid.org/0000-0003-2148-9135"},"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":true,"raw_author_name":"Alan Bridge","raw_affiliation_strings":["Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5090916579"],"corresponding_institution_ids":["https://openalex.org/I12708293"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":3.8794,"has_fulltext":true,"cited_by_count":75,"citation_normalized_percentile":{"value":0.94755781,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"47","issue":"D1","first_page":"D596","last_page":"D600"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9995999932289124,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9995999932289124,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9987999796867371,"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":0.9980999827384949,"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/uniprot","display_name":"UniProt","score":0.9000710844993591},{"id":"https://openalex.org/keywords/sparql","display_name":"SPARQL","score":0.8638491034507751},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6495080590248108},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6351139545440674},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.4877479672431946},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4835748076438904},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.4555536210536957},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4158870577812195},{"id":"https://openalex.org/keywords/metabolome","display_name":"Metabolome","score":0.41438591480255127},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.39125943183898926},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.32465577125549316},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.30317726731300354},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.2822319269180298},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.258428692817688},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13082441687583923},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.08274915814399719}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.9000710844993591},{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.8638491034507751},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6495080590248108},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6351139545440674},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.4877479672431946},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4835748076438904},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.4555536210536957},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4158870577812195},{"id":"https://openalex.org/C135870905","wikidata":"https://www.wikidata.org/wiki/Q903667","display_name":"Metabolome","level":3,"score":0.41438591480255127},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.39125943183898926},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.32465577125549316},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.30317726731300354},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.2822319269180298},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.258428692817688},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13082441687583923},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.08274915814399719},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"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/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062126","descriptor_name":"Databases, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/nar/gky876","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky876","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D596/27436440/gky876.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:30272209","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30272209","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:serval.unil.ch:BIB_593223E3F0D5","is_oa":true,"landing_page_url":"https://serval.unil.ch/notice/serval:BIB_593223E3F0D5","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic acids research, vol. 47, no. D1, pp. D596-D600","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:iris.unil.ch:iris/61342","is_oa":true,"landing_page_url":"https://iris.unil.ch/handle/iris/61342","pdf_url":"https://iris.unil.ch/bitstreams/5218f97f-f0a4-46ab-8d71-0891ce0c4c28/download","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:europepmc.org:5302027","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6324061","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6324061","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6324061","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":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gky876","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky876","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D596/27436440/gky876.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320313288","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52"},{"id":"https://openalex.org/F4320315885","display_name":"Australian Government","ror":"https://ror.org/0314h5y94"},{"id":"https://openalex.org/F4320327577","display_name":"SystemsX.ch","ror":"https://ror.org/02s09gf16"},{"id":"https://openalex.org/F4320335238","display_name":"Staatssekretariat f\u00fcr Bildung, Forschung und Innovation","ror":"https://ror.org/01kw63t33"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2895689867.pdf"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1935434993","https://openalex.org/W1952732684","https://openalex.org/W1971224718","https://openalex.org/W1989277387","https://openalex.org/W2085993965","https://openalex.org/W2104295259","https://openalex.org/W2107785922","https://openalex.org/W2110679449","https://openalex.org/W2116687544","https://openalex.org/W2117306286","https://openalex.org/W2154139219","https://openalex.org/W2202347610","https://openalex.org/W2233065681","https://openalex.org/W2334617819","https://openalex.org/W2513955315","https://openalex.org/W2543238710","https://openalex.org/W2548357532","https://openalex.org/W2559588208","https://openalex.org/W2585620150","https://openalex.org/W2593053867","https://openalex.org/W2765284721","https://openalex.org/W2767088268","https://openalex.org/W2767683865","https://openalex.org/W2792874817","https://openalex.org/W2793643488","https://openalex.org/W2795425364","https://openalex.org/W2801288141","https://openalex.org/W4210702584","https://openalex.org/W4233698560"],"related_works":["https://openalex.org/W2615202182","https://openalex.org/W4206665951","https://openalex.org/W3085073370","https://openalex.org/W2904139343","https://openalex.org/W2529794967","https://openalex.org/W2604011835","https://openalex.org/W2978246852","https://openalex.org/W2295924417","https://openalex.org/W4241483715","https://openalex.org/W2484233589"],"abstract_inverted_index":{"Rhea":[0,38,73,94,135],"(http://www.rhea-db.org)":[1],"is":[2],"a":[3,44,66,137,145],"comprehensive":[4],"and":[5,50,55,76,97,111,125,142,152,157],"non-redundant":[6],"resource":[7,68],"of":[8,46,72,104,134,149],"over":[9],"11":[10],"000":[11],"expert-curated":[12],"biochemical":[13],"reactions":[14],"that":[15,81,91,103,115],"uses":[16],"chemical":[17],"entities":[18],"from":[19],"the":[20,34,93,117,120,123,132],"ChEBI":[21,54],"ontology":[22],"to":[23,84,122,139],"represent":[24],"reaction":[25,41,74],"participants.":[26],"Originally":[27],"designed":[28],"as":[29,102,136],"an":[30,77],"annotation":[31,110],"vocabulary":[32],"for":[33,43,144],"UniProt":[35,105],"Knowledgebase":[36],"(UniProtKB),":[37],"also":[39],"provides":[40,82],"data":[42,51,75],"range":[45],"other":[47,98],"core":[48],"knowledgebases":[49],"repositories":[52],"including":[53],"MetaboLights.":[56],"Here":[57],"we":[58],"describe":[59],"recent":[60],"developments":[61,128],"in":[62,155],"Rhea,":[63],"focusing":[64],"on":[65],"new":[67],"description":[69],"framework":[70],"representation":[71],"SPARQL":[78,95,99],"endpoint":[79,96],"(https://sparql.rhea-db.org/sparql)":[80],"access":[83],"it.":[85],"We":[86],"demonstrate":[87],"how":[88],"federated":[89],"queries":[90],"combine":[92],"endpoints":[100],"such":[101],"can":[106],"provide":[107],"improved":[108],"metabolite":[109],"support":[112],"integrative":[113],"analyses":[114],"link":[116,140],"metabolome":[118],"through":[119],"proteome":[121],"transcriptome":[124],"genome.":[126],"These":[127],"will":[129],"significantly":[130],"boost":[131],"utility":[133],"means":[138],"chemistry":[141],"biology":[143],"more":[146],"holistic":[147],"understanding":[148],"biological":[150],"systems":[151],"their":[153],"function":[154],"health":[156],"disease.":[158]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":28},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":2}],"updated_date":"2026-06-18T08:10:14.011955","created_date":"2025-10-10T00:00:00"}
