{"id":"https://openalex.org/W2899766488","doi":"https://doi.org/10.1186/s12859-018-2429-2","title":"SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes","display_name":"SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes","publication_year":2018,"publication_date":"2018-11-06","ids":{"openalex":"https://openalex.org/W2899766488","doi":"https://doi.org/10.1186/s12859-018-2429-2","mag":"2899766488","pmid":"https://pubmed.ncbi.nlm.nih.gov/30400805"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2429-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2429-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2429-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2429-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060871481","display_name":"Andon Tchechmedjiev","orcid":"https://orcid.org/0000-0003-3749-5521"},"institutions":[{"id":"https://openalex.org/I4210101743","display_name":"Laboratoire d'Informatique, de Robotique et de Micro\u00e9lectronique de Montpellier","ror":"https://ror.org/013yean28","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I151295451","https://openalex.org/I19894307","https://openalex.org/I4210101743","https://openalex.org/I4210159245","https://openalex.org/I4412460525"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Andon Tchechmedjiev","raw_affiliation_strings":["LGI2P, IMT Mines Ales, Univ Montpellier, Al\u00e8s, France. andon.tchechmedjiev@lirmm.fr","Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France. andon.tchechmedjiev@lirmm.fr","Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France"],"affiliations":[{"raw_affiliation_string":"LGI2P, IMT Mines Ales, Univ Montpellier, Al\u00e8s, France. andon.tchechmedjiev@lirmm.fr","institution_ids":[]},{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France. andon.tchechmedjiev@lirmm.fr","institution_ids":[]},{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590","https://openalex.org/I4210101743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066771882","display_name":"Amine Abdaoui","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]},{"id":"https://openalex.org/I4210101743","display_name":"Laboratoire d'Informatique, de Robotique et de Micro\u00e9lectronique de Montpellier","ror":"https://ror.org/013yean28","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I151295451","https://openalex.org/I19894307","https://openalex.org/I4210101743","https://openalex.org/I4210159245","https://openalex.org/I4412460525"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Amine Abdaoui","raw_affiliation_strings":["Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France"],"affiliations":[{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590","https://openalex.org/I4210101743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064028156","display_name":"Vincent Emonet","orcid":"https://orcid.org/0000-0002-1501-1082"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210101743","display_name":"Laboratoire d'Informatique, de Robotique et de Micro\u00e9lectronique de Montpellier","ror":"https://ror.org/013yean28","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I151295451","https://openalex.org/I19894307","https://openalex.org/I4210101743","https://openalex.org/I4210159245","https://openalex.org/I4412460525"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Vincent Emonet","raw_affiliation_strings":["Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France"],"affiliations":[{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590","https://openalex.org/I4210101743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068502103","display_name":"Stella Zevio","orcid":null},"institutions":[{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]},{"id":"https://openalex.org/I4210101743","display_name":"Laboratoire d'Informatique, de Robotique et de Micro\u00e9lectronique de Montpellier","ror":"https://ror.org/013yean28","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I151295451","https://openalex.org/I19894307","https://openalex.org/I4210101743","https://openalex.org/I4210159245","https://openalex.org/I4412460525"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Stella Zevio","raw_affiliation_strings":["Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France"],"affiliations":[{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590","https://openalex.org/I4210101743"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064022148","display_name":"Cl\u00e9ment Jonquet","orcid":"https://orcid.org/0000-0002-2404-1582"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I19894307","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72","country_code":"FR","type":"education","lineage":["https://openalex.org/I19894307"]},{"id":"https://openalex.org/I4210101743","display_name":"Laboratoire d'Informatique, de Robotique et de Micro\u00e9lectronique de Montpellier","ror":"https://ror.org/013yean28","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I151295451","https://openalex.org/I19894307","https://openalex.org/I4210101743","https://openalex.org/I4210159245","https://openalex.org/I4412460525"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR","US"],"is_corresponding":false,"raw_author_name":"Clement Jonquet","raw_affiliation_strings":["Center for Biomedical Informatics Research (BMIR), Stanford University, 1265 Welch Rd, Stanford, CA, 94305, USA","Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France"],"affiliations":[{"raw_affiliation_string":"Center for Biomedical Informatics Research (BMIR), Stanford University, 1265 Welch Rd, Stanford, CA, 94305, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Laboratory of Informatics, Robotics and Microelectronics of Montpellier (LIRMM), University of Montpellier, CNRS, 161, rue Ada, 34095, Montpellier cedex 5, France","institution_ids":["https://openalex.org/I19894307","https://openalex.org/I1294671590","https://openalex.org/I4210101743"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5060871481"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I19894307","https://openalex.org/I4210101743"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.6516,"has_fulltext":true,"cited_by_count":20,"citation_normalized_percentile":{"value":0.690906,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"19","issue":"1","first_page":"405","last_page":"405"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9921000003814697,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9883999824523926,"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/computer-science","display_name":"Computer science","score":0.8361958265304565},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.6426072716712952},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5967912077903748},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.5182416439056396},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5164013504981995},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5151963829994202},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.4824736416339874},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.40147948265075684},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3867621123790741},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.36719760298728943},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2981107234954834},{"id":"https://openalex.org/keywords/semantic-web-stack","display_name":"Semantic Web Stack","score":0.2215040922164917},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.17206990718841553},{"id":"https://openalex.org/keywords/owl-s","display_name":"OWL-S","score":0.1700139343738556}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8361958265304565},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.6426072716712952},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5967912077903748},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.5182416439056396},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5164013504981995},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5151963829994202},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.4824736416339874},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.40147948265075684},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3867621123790741},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.36719760298728943},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2981107234954834},{"id":"https://openalex.org/C167379230","wikidata":"https://www.wikidata.org/wiki/Q1026884","display_name":"Semantic Web Stack","level":3,"score":0.2215040922164917},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.17206990718841553},{"id":"https://openalex.org/C50382505","wikidata":"https://www.wikidata.org/wiki/Q2553356","display_name":"OWL-S","level":4,"score":0.1700139343738556},{"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}],"mesh":[{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000043","descriptor_name":"Abstracting and Indexing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005602","descriptor_name":"France","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005602","descriptor_name":"France","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005602","descriptor_name":"France","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016239","descriptor_name":"MEDLINE","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055991","descriptor_name":"Health Records, Personal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055991","descriptor_name":"Health Records, Personal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055991","descriptor_name":"Health Records, Personal","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:10.1186/s12859-018-2429-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2429-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2429-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30400805","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30400805","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:HAL:lirmm-01934127v1","is_oa":true,"landing_page_url":"https://hal-lirmm.ccsd.cnrs.fr/lirmm-01934127","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","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":"BMC Bioinformatics, 2018, 19 (1), pp.405-431. &#x27E8;10.1186/s12859-018-2429-2&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:1a64b9d6bbb64a0c87dfbc8ba16fa4a6","is_oa":true,"landing_page_url":"https://doaj.org/article/1a64b9d6bbb64a0c87dfbc8ba16fa4a6","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss 1, Pp 1-26 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5170476","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6218966","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6218966","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6218966","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2429-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2429-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2429-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","score":0.5699999928474426,"id":"https://metadata.un.org/sdg/4"}],"awards":[{"id":"https://openalex.org/G3776455082","display_name":null,"funder_award_id":"ANR-15-CE23-0028","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G3780809258","display_name":null,"funder_award_id":"Marie Sk\u0142odowska-Curie","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G4110391279","display_name":null,"funder_award_id":"project,","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G4973929103","display_name":null,"funder_award_id":"funding","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"},{"id":"https://openalex.org/G6019563699","display_name":null,"funder_award_id":"701771","funder_id":"https://openalex.org/F4320338335","funder_display_name":"H2020 European Research Council"},{"id":"https://openalex.org/G6702880738","display_name":null,"funder_award_id":"ANR-12","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7526485016","display_name":null,"funder_award_id":"ANR-12-JS02-01001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"},{"id":"https://openalex.org/F4320324952","display_name":"Universit\u00e9 de Montpellier","ror":"https://ror.org/051escj72"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320338335","display_name":"H2020 European Research Council","ror":"https://ror.org/0472cxd90"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2899766488.pdf","grobid_xml":"https://content.openalex.org/works/W2899766488.grobid-xml"},"referenced_works_count":75,"referenced_works":["https://openalex.org/W87108502","https://openalex.org/W102787101","https://openalex.org/W109381856","https://openalex.org/W180510140","https://openalex.org/W1550258693","https://openalex.org/W1562433567","https://openalex.org/W1642278221","https://openalex.org/W1645607065","https://openalex.org/W1767907121","https://openalex.org/W1871852719","https://openalex.org/W1889753259","https://openalex.org/W1933643226","https://openalex.org/W1964625659","https://openalex.org/W2009000548","https://openalex.org/W2018148727","https://openalex.org/W2025824350","https://openalex.org/W2040298842","https://openalex.org/W2058490165","https://openalex.org/W2064148497","https://openalex.org/W2071764600","https://openalex.org/W2085966233","https://openalex.org/W2086509058","https://openalex.org/W2091729411","https://openalex.org/W2106797966","https://openalex.org/W2113142309","https://openalex.org/W2115871101","https://openalex.org/W2131660156","https://openalex.org/W2134015035","https://openalex.org/W2135423259","https://openalex.org/W2137999759","https://openalex.org/W2139865360","https://openalex.org/W2140291614","https://openalex.org/W2142741334","https://openalex.org/W2157272674","https://openalex.org/W2158191506","https://openalex.org/W2159583324","https://openalex.org/W2162323699","https://openalex.org/W2186072841","https://openalex.org/W2239231358","https://openalex.org/W2243275673","https://openalex.org/W2250322525","https://openalex.org/W2295240344","https://openalex.org/W2296157284","https://openalex.org/W2397208638","https://openalex.org/W2399985278","https://openalex.org/W2401579193","https://openalex.org/W2412461992","https://openalex.org/W2436001372","https://openalex.org/W2478437646","https://openalex.org/W2531883117","https://openalex.org/W2549898463","https://openalex.org/W2574633938","https://openalex.org/W2574695775","https://openalex.org/W2576851631","https://openalex.org/W2577790096","https://openalex.org/W2749448933","https://openalex.org/W2751106951","https://openalex.org/W2751444125","https://openalex.org/W2751838063","https://openalex.org/W2752214003","https://openalex.org/W2752593263","https://openalex.org/W2760618582","https://openalex.org/W2772877400","https://openalex.org/W2783547086","https://openalex.org/W2805211535","https://openalex.org/W2909447862","https://openalex.org/W2915704452","https://openalex.org/W2917856591","https://openalex.org/W3099272318","https://openalex.org/W4285719527","https://openalex.org/W6604181502","https://openalex.org/W6607434451","https://openalex.org/W6690734046","https://openalex.org/W6712596409","https://openalex.org/W6714980739"],"related_works":["https://openalex.org/W2392768766","https://openalex.org/W2058118494","https://openalex.org/W2361861616","https://openalex.org/W2095118173","https://openalex.org/W2382021449","https://openalex.org/W2405721538","https://openalex.org/W2184397297","https://openalex.org/W2531530678","https://openalex.org/W2899766488","https://openalex.org/W2115200041"],"abstract_inverted_index":{"We":[0],"show":[1],"the":[2,30,34],"web":[3,37],"service":[4],"performs":[5],"comparably":[6],"to":[7,40,80],"other":[8],"knowledge-based":[9],"annotation":[10],"approaches":[11],"in":[12,15,22],"recognizing":[13],"entities":[14],"biomedical":[16,45],"text":[17,46],"and":[18,42,58,60,69],"reach":[19],"state-of-the-art":[20],"levels":[21],"clinical":[23],"context":[24],"detection":[25],"(negation,":[26],"experiencer,":[27],"temporality).":[28],"Additionally,":[29],"SIFR":[31],"Annotator":[32],"is":[33,66],"first":[35],"openly":[36,67],"accessible":[38],"tool":[39],"annotate":[41],"contextualize":[43],"French":[44],"with":[47],"ontology":[48],"concepts":[49],"leveraging":[50],"a":[51,73],"dictionary":[52],"currently":[53],"made":[54],"of":[55],"28":[56],"terminologies":[57],"ontologies":[59],"333":[61],"K":[62],"concepts.":[63],"The":[64],"code":[65],"available,":[68],"we":[70],"also":[71],"provide":[72],"Docker":[74],"packaging":[75],"for":[76],"easy":[77],"local":[78],"deployment":[79],"process":[81],"sensitive":[82],"(e.g.,":[83],"clinical)":[84],"data":[85],"in-house":[86],"(":[87],"https://github.com/sifrproject":[88],").":[89]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
