{"id":"https://openalex.org/W4200058434","doi":"https://doi.org/10.1186/s12859-021-04236-y","title":"Improving deep learning method for biomedical named entity recognition by using entity definition information","display_name":"Improving deep learning method for biomedical named entity recognition by using entity definition information","publication_year":2021,"publication_date":"2021-12-17","ids":{"openalex":"https://openalex.org/W4200058434","doi":"https://doi.org/10.1186/s12859-021-04236-y","pmid":"https://pubmed.ncbi.nlm.nih.gov/34920699"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-021-04236-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04236-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04236-y","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/s12859-021-04236-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031742177","display_name":"Ying Xiong","orcid":"https://orcid.org/0000-0001-7423-2937"},"institutions":[{"id":"https://openalex.org/I158809036","display_name":"Shenzhen Institute of Information Technology","ror":"https://ror.org/03wrf9427","country_code":"CN","type":"education","lineage":["https://openalex.org/I158809036"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying Xiong","raw_affiliation_strings":["Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","Peng Cheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100396661","display_name":"Shuai Chen","orcid":"https://orcid.org/0000-0001-5739-9022"},"institutions":[{"id":"https://openalex.org/I158809036","display_name":"Shenzhen Institute of Information Technology","ror":"https://ror.org/03wrf9427","country_code":"CN","type":"education","lineage":["https://openalex.org/I158809036"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuai Chen","raw_affiliation_strings":["Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014238603","display_name":"Buzhou Tang","orcid":"https://orcid.org/0000-0003-0271-8246"},"institutions":[{"id":"https://openalex.org/I158809036","display_name":"Shenzhen Institute of Information Technology","ror":"https://ror.org/03wrf9427","country_code":"CN","type":"education","lineage":["https://openalex.org/I158809036"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Buzhou Tang","raw_affiliation_strings":["Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China. tangbuzhou@gmail.com","Peng Cheng Laboratory, Shenzhen, China. tangbuzhou@gmail.com","Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China"],"raw_orcid":"https://orcid.org/0000-0003-0271-8246","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China. tangbuzhou@gmail.com","institution_ids":["https://openalex.org/I158809036"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China. tangbuzhou@gmail.com","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101895423","display_name":"Qingcai Chen","orcid":"https://orcid.org/0000-0001-8473-7293"},"institutions":[{"id":"https://openalex.org/I158809036","display_name":"Shenzhen Institute of Information Technology","ror":"https://ror.org/03wrf9427","country_code":"CN","type":"education","lineage":["https://openalex.org/I158809036"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210136793","display_name":"Peng Cheng Laboratory","ror":"https://ror.org/03qdqbt06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210136793"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingcai Chen","raw_affiliation_strings":["Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","Peng Cheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100424254","display_name":"Xiaolong Wang","orcid":"https://orcid.org/0000-0001-9003-4252"},"institutions":[{"id":"https://openalex.org/I158809036","display_name":"Shenzhen Institute of Information Technology","ror":"https://ror.org/03wrf9427","country_code":"CN","type":"education","lineage":["https://openalex.org/I158809036"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaolong Wang","raw_affiliation_strings":["Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Harbin Institute of Technology, Shenzhen, Shenzhen, 518055, China","institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030330619","display_name":"Jun Yan","orcid":"https://orcid.org/0000-0003-2497-5518"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jun Yan","raw_affiliation_strings":["Yidu Cloud (Beijing) Technology Co., Ltd, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Yidu Cloud (Beijing) Technology Co., Ltd, Beijing, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101854123","display_name":"Yi Zhou","orcid":"https://orcid.org/0009-0004-8877-5173"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yi Zhou","raw_affiliation_strings":["Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou, 510080, China. zhouyi@sysu.edu.cn","Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou, 510080, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou, 510080, China. zhouyi@sysu.edu.cn","institution_ids":["https://openalex.org/I157773358"]},{"raw_affiliation_string":"Zhongshan School of Medicine, Sun Yat-Sen University, Guangzhou, 510080, China","institution_ids":["https://openalex.org/I157773358"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5101854123"],"corresponding_institution_ids":["https://openalex.org/I157773358"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.6662,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.66857883,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"22","issue":"S1","first_page":"600","last_page":"600"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.8180000185966492,"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":0.8180000185966492,"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/T10028","display_name":"Topic Modeling","score":0.1459999978542328,"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/T13702","display_name":"Machine Learning in Healthcare","score":0.00419999985024333,"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":0.7598578333854675},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.7378261685371399},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.6639932990074158},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6127634644508362},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.593736469745636},{"id":"https://openalex.org/keywords/meaning","display_name":"Meaning (existential)","score":0.5875881910324097},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.56819748878479},{"id":"https://openalex.org/keywords/f1-score","display_name":"F1 score","score":0.5245968699455261},{"id":"https://openalex.org/keywords/entity-linking","display_name":"Entity linking","score":0.5179433226585388},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5132255554199219},{"id":"https://openalex.org/keywords/named-entity","display_name":"Named entity","score":0.4380955696105957},{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.41747766733169556},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.3817251920700073},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.2173459827899933}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7598578333854675},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.7378261685371399},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.6639932990074158},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6127634644508362},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.593736469745636},{"id":"https://openalex.org/C2780876879","wikidata":"https://www.wikidata.org/wiki/Q3054749","display_name":"Meaning (existential)","level":2,"score":0.5875881910324097},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.56819748878479},{"id":"https://openalex.org/C148524875","wikidata":"https://www.wikidata.org/wiki/Q6975395","display_name":"F1 score","level":2,"score":0.5245968699455261},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.5179433226585388},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5132255554199219},{"id":"https://openalex.org/C2777889803","wikidata":"https://www.wikidata.org/wiki/Q25047676","display_name":"Named entity","level":2,"score":0.4380955696105957},{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.41747766733169556},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.3817251920700073},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.2173459827899933},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-021-04236-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04236-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04236-y","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:34920699","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34920699","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:doaj.org/article:9d06cabe6e424f499a98a689144d0faa","is_oa":true,"landing_page_url":"https://doaj.org/article/9d06cabe6e424f499a98a689144d0faa","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 22, Iss S1, Pp 1-12 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8680061","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8680061","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/s12859-021-04236-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04236-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04236-y","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":[{"id":"https://metadata.un.org/sdg/4","score":0.8500000238418579,"display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G1035160325","display_name":null,"funder_award_id":"U1813215","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4902115189","display_name":null,"funder_award_id":"61876052","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8496641075","display_name":null,"funder_award_id":"61573118","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321940","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4200058434.pdf"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W47135330","https://openalex.org/W1034374084","https://openalex.org/W1700952868","https://openalex.org/W1981797826","https://openalex.org/W2015079391","https://openalex.org/W2027233318","https://openalex.org/W2095444228","https://openalex.org/W2112685487","https://openalex.org/W2114361266","https://openalex.org/W2118367849","https://openalex.org/W2122402213","https://openalex.org/W2126276057","https://openalex.org/W2137407193","https://openalex.org/W2154142897","https://openalex.org/W2183114698","https://openalex.org/W2468432491","https://openalex.org/W2516196286","https://openalex.org/W2740747242","https://openalex.org/W2743028754","https://openalex.org/W2763990719","https://openalex.org/W2766140847","https://openalex.org/W2787068485","https://openalex.org/W2794604371","https://openalex.org/W2911489562","https://openalex.org/W2949176808","https://openalex.org/W2949922292","https://openalex.org/W2963339489","https://openalex.org/W2970511757","https://openalex.org/W2970799187","https://openalex.org/W2971258845","https://openalex.org/W2983842045","https://openalex.org/W2984445526","https://openalex.org/W2985294119","https://openalex.org/W2986178925","https://openalex.org/W2986843699","https://openalex.org/W2986909442","https://openalex.org/W2987972786","https://openalex.org/W2989464093","https://openalex.org/W2997170098","https://openalex.org/W3035625205","https://openalex.org/W3104486441","https://openalex.org/W3104757407","https://openalex.org/W4213016248","https://openalex.org/W4239019441","https://openalex.org/W4250526791","https://openalex.org/W6681542663","https://openalex.org/W6745479485"],"related_works":["https://openalex.org/W3140537242","https://openalex.org/W2186562580","https://openalex.org/W2155874911","https://openalex.org/W2015784841","https://openalex.org/W3106756765","https://openalex.org/W948963445","https://openalex.org/W2901060953","https://openalex.org/W2757016069","https://openalex.org/W2899463504","https://openalex.org/W3216421539"],"abstract_inverted_index":{"BACKGROUND:":[0],"Biomedical":[1,52],"named":[2],"entity":[3,19,27,74,88,109,125,142,165,175,182,232,295,309,325,343],"recognition":[4],"(NER)":[5],"is":[6,54,111,179,199,289,298],"a":[7,43,58,242,247,283,329],"fundamental":[8],"task":[9],"of":[10,18,33,72,87,107,167,245,249,254,262,320],"biomedical":[11,22,34,95,148,305,333],"text":[12,23,149],"mining":[13],"that":[14,140,163,294,324],"finds":[15],"the":[16,31,39,70,85,101,129,192,238,259,263,273,315,337],"boundaries":[17],"mentions":[20],"in":[21,37,90,128,224,269,286],"and":[24,50,62,97,147,152,173,189,196,206,218,251],"determines":[25],"their":[26,197],"type.":[28],"To":[29],"accelerate":[30],"development":[32],"NER":[35,53,96,334],"techniques":[36],"Spanish,":[38],"PharmaCoNER":[40,102,193,264],"organizers":[41],"launched":[42],"competition":[44],"to":[45,83,100,123,214],"recognize":[46],"pharmacological":[47],"substances,":[48],"compounds,":[49],"proteins.":[51],"usually":[55],"recognized":[56],"as":[57,145,150,156,235],"sequence":[59,66],"labeling":[60,67],"task,":[61],"almost":[63],"all":[64],"state-of-the-art":[65,274,316],"methods":[68,82,93,139,162,220,303],"ignore":[69],"meaning":[71,86,106],"different":[73],"types.":[75],"In":[76,336],"this":[77],"paper,":[78],"we":[79,339],"investigate":[80,121],"some":[81],"introduce":[84,174],"types":[89],"deep":[91,301],"learning":[92,302],"for":[94,300],"apply":[98],"them":[99],"2019":[103,194,265],"challenge.":[104],"The":[105,227],"each":[108],"type":[110,169,172,176],"represented":[112,180],"by":[113,170,181,201,221,267],"its":[114],"definition":[115,126,143,183,210,233,296,310,326,344],"information.":[116,184],"MATERIAL":[117],"AND":[118],"METHOD:":[119],"We":[120],"how":[122],"use":[124],"information":[127,144,211,234,297,311,327,345],"following":[130],"two":[131],"methods:":[132],"(1)":[133],"SQuad-style":[134,216,228],"machine":[135],"reading":[136],"comprehension":[137],"(MRC)":[138],"treat":[141],"query":[146,236],"context":[151],"predict":[153,164],"answer":[154],"spans":[155,166],"entities.":[157],"(2)":[158],"Span-level":[159],"one-pass":[160],"(SOne)":[161],"one":[168,171],"meaning,":[177],"which":[178,288,322],"All":[185],"models":[186,313],"are":[187],"trained":[188],"tested":[190],"on":[191,304,332],"corpus,":[195],"performance":[198,240],"evaluated":[200],"strict":[202],"micro-average":[203,317],"precision,":[204],"recall,":[205],"F1-score.":[207,226,270],"RESULTS:":[208],"Entity":[209],"brings":[212],"improvements":[213],"both":[215],"MRC":[217,229],"SOne":[219],"about":[222],"0.003":[223],"micro-averaged":[225,243],"model":[230,261,275,281],"using":[231,277],"achieves":[237],"best":[239,260],"with":[241,272],"precision":[244],"0.9225,":[246],"recall":[248],"0.9050,":[250],"an":[252],"F1-score":[253],"0.9137,":[255,321],"respectively.":[256],"It":[257],"outperforms":[258],"challenge":[266],"0.0032":[268],"Compared":[271],"without":[276],"manually-crafted":[278],"features,":[279],"our":[280],"obtains":[282],"1%":[284],"improvement":[285],"F1-score,":[287],"significant.":[290],"These":[291],"results":[292],"indicate":[293],"useful":[299],"NER.":[306],"CONCLUSION:":[307],"Our":[308],"enhanced":[312],"achieve":[314],"F1":[318],"score":[319],"implies":[323],"has":[328],"positive":[330],"impact":[331],"detection.":[335],"future,":[338],"will":[340],"explore":[341],"more":[342],"from":[346],"knowledge":[347],"graph.":[348]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":4}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
