{"id":"https://openalex.org/W2045016337","doi":"https://doi.org/10.1186/1471-2105-9-s3-s3","title":"Assessment of disease named entity recognition on a corpus of annotated sentences","display_name":"Assessment of disease named entity recognition on a corpus of annotated sentences","publication_year":2008,"publication_date":"2008-04-01","ids":{"openalex":"https://openalex.org/W2045016337","doi":"https://doi.org/10.1186/1471-2105-9-s3-s3","mag":"2045016337","pmid":"https://pubmed.ncbi.nlm.nih.gov/18426548"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-s3-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s3-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S3-S3","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/counter/pdf/10.1186/1471-2105-9-S3-S3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077681143","display_name":"Antonio Jimeno Yepes","orcid":"https://orcid.org/0000-0002-6581-094X"},"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"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Antonio Jimeno","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. yepes@ebi.ac.uk","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. yepes@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056324053","display_name":"Ernesto Jim\u00e9nez-Ruiz","orcid":"https://orcid.org/0000-0002-9083-4599"},"institutions":[{"id":"https://openalex.org/I10902133","display_name":"Universitat Jaume I","ror":"https://ror.org/02ws1xc11","country_code":"ES","type":"education","lineage":["https://openalex.org/I10902133"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Ernesto Jimenez-Ruiz","raw_affiliation_strings":["Departamento de Lenguajes y Sistemas Informaticos, Universitat Jaume I, Castellon de la Plana, 12071, Spain","Departamento de Lenguajes y Sistemas Inform\u00e1ticos, Universitat Jaume I, Castell\u00f3n de la Plana, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departamento de Lenguajes y Sistemas Informaticos, Universitat Jaume I, Castellon de la Plana, 12071, Spain","institution_ids":["https://openalex.org/I10902133"]},{"raw_affiliation_string":"Departamento de Lenguajes y Sistemas Inform\u00e1ticos, Universitat Jaume I, Castell\u00f3n de la Plana, Spain","institution_ids":["https://openalex.org/I10902133"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103368716","display_name":"Vivian Lee","orcid":null},"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":"Vivian Lee","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014780377","display_name":"Sylvain Gaudan","orcid":null},"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":"Sylvain Gaudan","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063246198","display_name":"Rafael Berlanga","orcid":"https://orcid.org/0000-0002-9155-269X"},"institutions":[{"id":"https://openalex.org/I10902133","display_name":"Universitat Jaume I","ror":"https://ror.org/02ws1xc11","country_code":"ES","type":"education","lineage":["https://openalex.org/I10902133"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Rafael Berlanga","raw_affiliation_strings":["Departamento de Lenguajes y Sistemas Informaticos, Universitat Jaume I, Castellon de la Plana, 12071, Spain","Departamento de Lenguajes y Sistemas Inform\u00e1ticos, Universitat Jaume I, Castell\u00f3n de la Plana, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departamento de Lenguajes y Sistemas Informaticos, Universitat Jaume I, Castellon de la Plana, 12071, Spain","institution_ids":["https://openalex.org/I10902133"]},{"raw_affiliation_string":"Departamento de Lenguajes y Sistemas Inform\u00e1ticos, Universitat Jaume I, Castell\u00f3n de la Plana, Spain","institution_ids":["https://openalex.org/I10902133"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006224704","display_name":"Dietrich Rebholz\u2010Schuhmann","orcid":"https://orcid.org/0000-0002-1018-0370"},"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":"Dietrich Rebholz-Schuhmann","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK;","institution_ids":["https://openalex.org/I1303153112"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5056324053","https://openalex.org/A5077681143"],"corresponding_institution_ids":["https://openalex.org/I10902133","https://openalex.org/I1303153112"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":5.6954,"has_fulltext":true,"cited_by_count":123,"citation_normalized_percentile":{"value":0.9679282,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"9","issue":"S3","first_page":"S3","last_page":"S3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.986299991607666,"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":0.986299991607666,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.0035000001080334187,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.003100000089034438,"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/unified-medical-language-system","display_name":"Unified Medical Language System","score":0.9182595610618591},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7638692855834961},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.7377204298973083},{"id":"https://openalex.org/keywords/terminology","display_name":"Terminology","score":0.6459367275238037},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6322764158248901},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6178351640701294},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5773733854293823},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5587582588195801},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5262690782546997},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5110791921615601},{"id":"https://openalex.org/keywords/thesaurus","display_name":"Thesaurus","score":0.5010783672332764},{"id":"https://openalex.org/keywords/medical-terminology","display_name":"Medical terminology","score":0.4456756114959717},{"id":"https://openalex.org/keywords/entity-linking","display_name":"Entity linking","score":0.4285967946052551},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.4267708659172058},{"id":"https://openalex.org/keywords/precision-and-recall","display_name":"Precision and recall","score":0.42391955852508545},{"id":"https://openalex.org/keywords/controlled-vocabulary","display_name":"Controlled vocabulary","score":0.4220893383026123},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.319477915763855},{"id":"https://openalex.org/keywords/linguistics","display_name":"Linguistics","score":0.1862563192844391},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.18596377968788147},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.15771889686584473}],"concepts":[{"id":"https://openalex.org/C69505689","wikidata":"https://www.wikidata.org/wiki/Q455338","display_name":"Unified Medical Language System","level":2,"score":0.9182595610618591},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7638692855834961},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.7377204298973083},{"id":"https://openalex.org/C547195049","wikidata":"https://www.wikidata.org/wiki/Q1725664","display_name":"Terminology","level":2,"score":0.6459367275238037},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6322764158248901},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6178351640701294},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5773733854293823},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5587582588195801},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5262690782546997},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5110791921615601},{"id":"https://openalex.org/C2778698081","wikidata":"https://www.wikidata.org/wiki/Q179797","display_name":"Thesaurus","level":2,"score":0.5010783672332764},{"id":"https://openalex.org/C511227900","wikidata":"https://www.wikidata.org/wiki/Q1192539","display_name":"Medical terminology","level":2,"score":0.4456756114959717},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.4285967946052551},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.4267708659172058},{"id":"https://openalex.org/C81669768","wikidata":"https://www.wikidata.org/wiki/Q2359161","display_name":"Precision and recall","level":2,"score":0.42391955852508545},{"id":"https://openalex.org/C110615152","wikidata":"https://www.wikidata.org/wiki/Q1469824","display_name":"Controlled vocabulary","level":2,"score":0.4220893383026123},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.319477915763855},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.1862563192844391},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.18596377968788147},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.15771889686584473},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004014","descriptor_name":"Dictionaries as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004014","descriptor_name":"Dictionaries as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004014","descriptor_name":"Dictionaries as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"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":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009626","descriptor_name":"Terminology as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017432","descriptor_name":"Unified Medical Language System","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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}],"locations_count":8,"locations":[{"id":"doi:10.1186/1471-2105-9-s3-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s3-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S3-S3","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:18426548","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18426548","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:dnet:repositoriun::c035917e0fbb44a4c3fb34bd4f1bf723","is_oa":true,"landing_page_url":"http://hdl.handle.net/10234/10234","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:openaccess.city.ac.uk:22940","is_oa":false,"landing_page_url":"https://openaccess.city.ac.uk/view/creators_id/ernesto=2Ejimenez-ruiz.html>","pdf_url":null,"source":{"id":"https://openalex.org/S4306401940","display_name":"City Research Online (City University London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I180825142","host_organization_name":"City, University of London","host_organization_lineage":["https://openalex.org/I180825142"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:jupiter.its.unimelb.edu.au:11343/259012","is_oa":true,"landing_page_url":"http://hdl.handle.net/11343/259012","pdf_url":"http://hdl.handle.net/11343/259012","source":{"id":"https://openalex.org/S4377196259","display_name":"Minerva Access (University of Melbourne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I165779595","host_organization_name":"The University of Melbourne","host_organization_lineage":["https://openalex.org/I165779595"],"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":"Conference Paper"},{"id":"pmh:oai:doaj.org/article:740dd9732b104abd843f50678669fff5","is_oa":true,"landing_page_url":"https://doaj.org/article/740dd9732b104abd843f50678669fff5","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss Suppl 3, p S3 (2008)","raw_type":"article"},{"id":"pmh:oai:ora.ox.ac.uk:uuid:e2968daa-b89b-405a-9465-1266bf89b3ac","is_oa":true,"landing_page_url":"https://ora.ox.ac.uk/objects/uuid:e2968daa-b89b-405a-9465-1266bf89b3ac","pdf_url":null,"source":{"id":"https://openalex.org/S4306402636","display_name":"Oxford University Research Archive (ORA) (University of Oxford)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I40120149","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/I40120149"],"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":"Department of Computer Science","raw_type":"Conference item"},{"id":"pmh:oai:pubmedcentral.nih.gov:2352871","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2352871","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-s3-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s3-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S3-S3","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","id":"https://metadata.un.org/sdg/4","score":0.5699999928474426}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321864","display_name":"Generalitat Valenciana","ror":"https://ror.org/0097mvx21"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2045016337.pdf","grobid_xml":"https://content.openalex.org/works/W2045016337.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W93553280","https://openalex.org/W626058384","https://openalex.org/W1490056294","https://openalex.org/W1550258693","https://openalex.org/W1553529581","https://openalex.org/W1606527432","https://openalex.org/W1747861911","https://openalex.org/W1755219215","https://openalex.org/W1954715867","https://openalex.org/W1979012337","https://openalex.org/W2044420612","https://openalex.org/W2047782770","https://openalex.org/W2049240985","https://openalex.org/W2061166439","https://openalex.org/W2093969396","https://openalex.org/W2116040937","https://openalex.org/W2142741334","https://openalex.org/W2157870551","https://openalex.org/W2163107094","https://openalex.org/W2167199696","https://openalex.org/W2168808732","https://openalex.org/W2169918010","https://openalex.org/W2799321649","https://openalex.org/W2917293077"],"related_works":["https://openalex.org/W2509297716","https://openalex.org/W1508778694","https://openalex.org/W138082899","https://openalex.org/W2373982542","https://openalex.org/W2159583324","https://openalex.org/W2114373757","https://openalex.org/W2010487328","https://openalex.org/W2340589664","https://openalex.org/W2036729745","https://openalex.org/W2052511096"],"abstract_inverted_index":{"BACKGROUND:":[0],"In":[1,135,296],"recent":[2],"years,":[3],"the":[4,10,40,56,61,82,96,103,106,110,121,194,197,207,216,233,258,309,318,321,328,360,378,384,388,395],"recognition":[5,251],"of":[6,43,76,85,99,105,112,180,199,201,311,330,350,359,377,380],"semantic":[7,33],"types":[8,34],"from":[9,67,95,114,225],"biomedical":[11],"scientific":[12,57],"literature":[13],"has":[14,126,139,190],"been":[15,48,129,140,191,255,272],"focused":[16],"on":[17,131,206],"named":[18,53,249],"entities":[19,54,152,224],"like":[20,35],"protein":[21],"and":[22,26,164,210,214,235,287,320,387],"gene":[23,27],"names":[24],"(PGNs)":[25],"ontology":[28,163],"terms":[29,349],"(GO":[30],"terms).":[31],"Other":[32],"diseases":[36,204],"have":[37,47,185,212,219,254,271],"not":[38,127],"received":[39],"same":[41],"level":[42],"attention.":[44],"Different":[45],"solutions":[46,73,246],"proposed":[49],"to":[50,79,144,155,172,203,257,260,274,293],"identify":[51],"disease":[52,151,156,223,248,312,381],"in":[55,120,153,158,193,232,348,383],"literature.":[58,122,322,385],"While":[59],"matching":[60],"terminology":[62,313],"with":[63,264],"language":[64],"patterns":[65],"suffers":[66],"low":[68],"recall":[69,332,339],"(e.g.,":[70,88],"Whatizit)":[71],"other":[72,294],"make":[74],"use":[75,310],"morpho-syntactic":[77],"features":[78],"better":[80,338,346,375],"cover":[81],"full":[83],"scope":[84],"terminological":[86],"variability":[87],"MetaMap).":[89],"Currently,":[90],"MetaMap":[91,253,323,386],"that":[92,149,165,189,300,308],"is":[93,102,282,314],"provided":[94],"National":[97],"Library":[98],"Medicine":[100],"(NLM)":[101],"state":[104],"art":[107],"solution":[108],"for":[109,196,222,241,247],"annotation":[111],"concepts":[113],"UMLS":[115,208,265],"(Unified":[116],"Medical":[117],"Language":[118],"System)":[119],"Nonetheless,":[123],"its":[124],"performance":[125],"yet":[128],"assessed":[130],"an":[132,146],"annotated":[133,147,239,280],"corpus.":[134,217],"addition,":[136,297],"little":[137],"effort":[138],"invested":[141],"so":[142],"far":[143],"generate":[145],"dataset":[148],"links":[150],"text":[154,174],"entries":[157],"a":[159,169,187,237,291,341,374],"database,":[160],"thesaurus":[161],"or":[162],"could":[166],"serve":[167,289],"as":[168,290],"gold":[170],"standard":[171],"benchmark":[173,292],"mining":[175],"solutions.":[176],"RESULTS:":[177],"As":[178],"part":[179],"our":[181,334,371],"research":[182],"work,":[183],"we":[184,211,298],"taken":[186],"corpus":[188,240,259,281],"delivered":[192],"past":[195],"identification":[198],"associations":[200],"genes":[202],"based":[205,390],"Metathesaurus":[209,266],"reprocessed":[213],"re-annotated":[215],"We":[218],"gathered":[220],"annotations":[221,270,382],"two":[226,358],"curators,":[227],"analyzed":[228],"their":[229,276],"disagreement":[230],"(0.51":[231],"kappa-statistic)":[234],"composed":[236],"single":[238],"public":[242],"use.":[243],"Thereafter,":[244],"three":[245,361],"entity":[250],"including":[252],"applied":[256],"automatically":[261],"annotate":[262],"it":[263],"concepts.":[267],"The":[268,279],"resulting":[269],"benchmarked":[273],"compare":[275],"performance.":[277],"CONCLUSIONS:":[278],"publicly":[283],"available":[284,393],"at":[285,327,340,356],"ftp://ftp.ebi.ac.uk/pub/software/textmining/corpora/diseases":[286],"can":[288],"systems.":[295],"found":[299],"dictionary":[301,389],"look-up":[302],"already":[303],"provides":[304],"competitive":[305],"results":[306,326,347],"indicating":[307],"highly":[315],"standardized":[316],"throughout":[317],"terminologies":[319],"generates":[324],"precise":[325],"expense":[329],"insufficient":[331],"while":[333],"statistical":[335],"method":[336],"obtains":[337],"lower":[342],"precision":[343,351],"rate.":[344],"Even":[345],"are":[352,392],"achieved":[353],"by":[354],"combining":[355],"least":[357],"methods":[362],"leading,":[363],"but":[364],"this":[365],"approach":[366,391],"again":[367],"lowers":[368],"recall.":[369],"Altogether,":[370],"analysis":[372],"gives":[373],"understanding":[376],"complexity":[379],"through":[394,412],"Whatizit":[396],"web":[397],"service":[398],"infrastructure":[399],"(Rebholz-Schuhmann":[400],"D,":[401],"Arregui":[402],"M,":[403],"Gaudan":[404],"S,":[405],"Kirsch":[406],"H,":[407],"Jimeno":[408],"A:":[409],"Text":[410],"processing":[411],"Web":[413],"services:":[414],"Calling":[415],"Whatizit.":[416],"Bioinformatics":[417],"2008,":[418],"24:296-298).":[419]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":11},{"year":2016,"cited_by_count":8},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":9},{"year":2013,"cited_by_count":10},{"year":2012,"cited_by_count":15}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
