{"id":"https://openalex.org/W2516254529","doi":"https://doi.org/10.1093/bioinformatics/btw579","title":"OntoBrowser: a collaborative tool for curation of ontologies by subject matter experts","display_name":"OntoBrowser: a collaborative tool for curation of ontologies by subject matter experts","publication_year":2016,"publication_date":"2016-09-06","ids":{"openalex":"https://openalex.org/W2516254529","doi":"https://doi.org/10.1093/bioinformatics/btw579","mag":"2516254529","pmid":"https://pubmed.ncbi.nlm.nih.gov/27605099"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw579","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw579","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/1/148/25140366/btw579.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/1/148/25140366/btw579.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5004297337","display_name":"Carlo Ravagli","orcid":null},"institutions":[{"id":"https://openalex.org/I1283582996","display_name":"Novartis (Switzerland)","ror":"https://ror.org/02f9zrr09","country_code":"CH","type":"company","lineage":["https://openalex.org/I1283582996"]},{"id":"https://openalex.org/I4400600974","display_name":"Novartis Institutes for BioMedical Research","ror":"https://ror.org/053gv2m95","country_code":null,"type":"funder","lineage":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Carlo Ravagli","raw_affiliation_strings":["PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland","institution_ids":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022074564","display_name":"Fran\u00e7ois Pognan","orcid":"https://orcid.org/0000-0001-7033-2033"},"institutions":[{"id":"https://openalex.org/I1283582996","display_name":"Novartis (Switzerland)","ror":"https://ror.org/02f9zrr09","country_code":"CH","type":"company","lineage":["https://openalex.org/I1283582996"]},{"id":"https://openalex.org/I4400600974","display_name":"Novartis Institutes for BioMedical Research","ror":"https://ror.org/053gv2m95","country_code":null,"type":"funder","lineage":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Francois Pognan","raw_affiliation_strings":["PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland","institution_ids":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012222427","display_name":"Philippe Marc","orcid":"https://orcid.org/0000-0002-0064-0572"},"institutions":[{"id":"https://openalex.org/I1283582996","display_name":"Novartis (Switzerland)","ror":"https://ror.org/02f9zrr09","country_code":"CH","type":"company","lineage":["https://openalex.org/I1283582996"]},{"id":"https://openalex.org/I4400600974","display_name":"Novartis Institutes for BioMedical Research","ror":"https://ror.org/053gv2m95","country_code":null,"type":"funder","lineage":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Philippe Marc","raw_affiliation_strings":["PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"PreClinical Safety, Translational Sciences, Novartis Institute for Biomedical Research, Basel, Switzerland","institution_ids":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5012222427"],"corresponding_institution_ids":["https://openalex.org/I1283582996","https://openalex.org/I4400600974"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.9149,"has_fulltext":false,"cited_by_count":23,"citation_normalized_percentile":{"value":0.862573,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"33","issue":"1","first_page":"148","last_page":"149"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.7886999845504761,"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":0.7886999845504761,"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":0.10530000180006027,"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/T11937","display_name":"Research Data Management Practices","score":0.06639999896287918,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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/computer-science","display_name":"Computer science","score":0.8365747928619385},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6670523881912231},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5658591985702515},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.5365234613418579},{"id":"https://openalex.org/keywords/data-curation","display_name":"Data curation","score":0.5210932493209839},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.5053951740264893},{"id":"https://openalex.org/keywords/relational-database","display_name":"Relational database","score":0.4464516043663025},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4298451244831085},{"id":"https://openalex.org/keywords/terminology","display_name":"Terminology","score":0.4220884144306183},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.41539785265922546},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.37783366441726685},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3338528871536255},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1115846335887909}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8365747928619385},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6670523881912231},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5658591985702515},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5365234613418579},{"id":"https://openalex.org/C91632574","wikidata":"https://www.wikidata.org/wiki/Q15088675","display_name":"Data curation","level":2,"score":0.5210932493209839},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.5053951740264893},{"id":"https://openalex.org/C5655090","wikidata":"https://www.wikidata.org/wiki/Q192588","display_name":"Relational database","level":2,"score":0.4464516043663025},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4298451244831085},{"id":"https://openalex.org/C547195049","wikidata":"https://www.wikidata.org/wiki/Q1725664","display_name":"Terminology","level":2,"score":0.4220884144306183},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.41539785265922546},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.37783366441726685},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3338528871536255},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1115846335887909},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D010380","descriptor_name":"Peer Review","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010380","descriptor_name":"Peer Review","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010380","descriptor_name":"Peer Review","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btw579","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw579","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/1/148/25140366/btw579.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27605099","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27605099","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:33/1/148","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/33/1/148","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:5408772","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5408772","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw579","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw579","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/1/148/25140366/btw579.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1551684349","https://openalex.org/W1970925298","https://openalex.org/W2042631179","https://openalex.org/W2049625541","https://openalex.org/W2109488005","https://openalex.org/W2113142309","https://openalex.org/W2163306109"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W4284973349","https://openalex.org/W2407615899","https://openalex.org/W2393185060","https://openalex.org/W2189020697","https://openalex.org/W3146054626","https://openalex.org/W4288048145","https://openalex.org/W3148030980","https://openalex.org/W2119748718","https://openalex.org/W1992092306"],"abstract_inverted_index":{"The":[0,78,134],"lack":[1],"of":[2,19,24,81,119],"controlled":[3,33],"terminology":[4],"and":[5,13,44,65,106,124,147,166],"ontology":[6,101,108],"usage":[7],"leads":[8],"to":[9,30,32,47,84,95,99,116,158],"incomplete":[10],"search":[11],"results":[12,69],"poor":[14],"interoperability":[15],"between":[16],"databases.":[17],"One":[18],"the":[20,42,141],"major":[21],"underlying":[22],"challenges":[23],"data":[25,29,49,63,168],"integration":[26,64],"is":[27,51,83,137,156],"curating":[28],"adhere":[31],"terminologies":[34],"and/or":[35],"ontologies.":[36],"Finding":[37],"subject":[38,92],"matter":[39,93],"experts":[40,94],"with":[41,129],"time":[43],"skills":[45],"required":[46],"perform":[48],"curation":[50,72],"often":[52,75],"problematic.":[53],"In":[54],"addition,":[55],"existing":[56],"tools":[57],"are":[58,150],"not":[59],"designed":[60,157],"for":[61,91],"continuous":[62],"collaborative":[66,89],"curation.":[67],"This":[68,154],"in":[70,121,169],"time-consuming":[71],"workflows":[73],"that":[74],"become":[76],"unsustainable.":[77],"primary":[79],"objective":[80],"OntoBrowser":[82],"provide":[85],"an":[86],"easy-to-use":[87],"online":[88],"solution":[90],"map":[96],"reported":[97],"terms":[98,105],"preferred":[100],"(or":[102],"code":[103,136,146],"list)":[104],"facilitate":[107],"evolution.":[109],"Additional":[110],"features":[111],"include":[112],"web":[113],"service":[114],"access":[115],"data,":[117],"visualization":[118],"ontologies":[120],"hierarchical/graph":[122],"format":[123],"a":[125,161,170],"peer":[126],"review/approval":[127],"workflow":[128],"alerting.":[130],"AVAILABILITY":[131],"AND":[132],"IMPLEMENTATION:":[133],"source":[135],"freely":[138],"available":[139,151],"under":[140],"Apache":[142],"v2.0":[143],"license.":[144],"Source":[145],"installation":[148],"instructions":[149],"at":[152],"http://opensource.nibr.com":[153],"software":[155],"run":[159],"on":[160],"Java":[162],"EE":[163],"application":[164],"server":[165],"store":[167],"relational":[171],"database.":[172],"CONTACT:":[173],"philippe.marc@novartis.com.":[174]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}