{"id":"https://openalex.org/W2989464093","doi":"https://doi.org/10.18653/v1/d19-5715","title":"Transfer Learning in Biomedical Named Entity Recognition: An Evaluation of BERT in the PharmaCoNER task","display_name":"Transfer Learning in Biomedical Named Entity Recognition: An Evaluation of BERT in the PharmaCoNER task","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2989464093","doi":"https://doi.org/10.18653/v1/d19-5715","mag":"2989464093"},"language":"en","primary_location":{"id":"doi:10.18653/v1/d19-5715","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5715","pdf_url":"https://www.aclweb.org/anthology/D19-5715.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.aclweb.org/anthology/D19-5715.pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102828553","display_name":"Cong Sun","orcid":"https://orcid.org/0000-0003-0240-1070"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Cong Sun","raw_affiliation_strings":["Dalian University of Technology"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051597671","display_name":"Zhihao Yang","orcid":"https://orcid.org/0000-0001-6186-2024"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhihao Yang","raw_affiliation_strings":["Dalian University of Technology"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5102828553"],"corresponding_institution_ids":["https://openalex.org/I27357992"],"apc_list":null,"apc_paid":null,"fwci":3.9015,"has_fulltext":true,"cited_by_count":43,"citation_normalized_percentile":{"value":0.94995941,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"100","last_page":"104"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9990000128746033,"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"}},"topics":[{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9990000128746033,"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/T10181","display_name":"Natural Language Processing Techniques","score":0.9973999857902527,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9954000115394592,"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/computer-science","display_name":"Computer science","score":0.8768722414970398},{"id":"https://openalex.org/keywords/named-entity-recognition","display_name":"Named-entity recognition","score":0.815737247467041},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.721463680267334},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.7141063213348389},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.6754468679428101},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6684997081756592},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.6426856517791748},{"id":"https://openalex.org/keywords/transfer-of-learning","display_name":"Transfer of learning","score":0.6351501941680908},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5672793388366699},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5327038168907166},{"id":"https://openalex.org/keywords/entity-linking","display_name":"Entity linking","score":0.4813557267189026},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.34237611293792725},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.08881556987762451}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8768722414970398},{"id":"https://openalex.org/C2779135771","wikidata":"https://www.wikidata.org/wiki/Q403574","display_name":"Named-entity recognition","level":3,"score":0.815737247467041},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.721463680267334},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.7141063213348389},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.6754468679428101},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6684997081756592},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.6426856517791748},{"id":"https://openalex.org/C150899416","wikidata":"https://www.wikidata.org/wiki/Q1820378","display_name":"Transfer of learning","level":2,"score":0.6351501941680908},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5672793388366699},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5327038168907166},{"id":"https://openalex.org/C96711827","wikidata":"https://www.wikidata.org/wiki/Q17012245","display_name":"Entity linking","level":3,"score":0.4813557267189026},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.34237611293792725},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.08881556987762451},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"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},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.18653/v1/d19-5715","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5715","pdf_url":"https://www.aclweb.org/anthology/D19-5715.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.18653/v1/d19-5715","is_oa":true,"landing_page_url":"https://doi.org/10.18653/v1/d19-5715","pdf_url":"https://www.aclweb.org/anthology/D19-5715.pdf","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of The 5th Workshop on BioNLP Open Shared Tasks","raw_type":"proceedings-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","score":0.7799999713897705,"display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G1121271761","display_name":null,"funder_award_id":"Program","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1874822141","display_name":null,"funder_award_id":"61572102","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2209016248","display_name":null,"funder_award_id":"No.61272373","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2320491387","display_name":null,"funder_award_id":"NCET-13-0084","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2895212994","display_name":null,"funder_award_id":"NCET-13","funder_id":"https://openalex.org/F4320334924","funder_display_name":"Program for New Century Excellent Talents in University"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3553340515","display_name":null,"funder_award_id":"61572098","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G391238517","display_name":null,"funder_award_id":", and","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4618271646","display_name":null,"funder_award_id":"2016YFC0901902","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G5664433505","display_name":null,"funder_award_id":"2016YFC0901902","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6305690009","display_name":null,"funder_award_id":"1272373","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6498840699","display_name":null,"funder_award_id":"61272373, 61572102 and 61572098","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G710307346","display_name":null,"funder_award_id":"NCET-13-0084","funder_id":"https://openalex.org/F4320321106","funder_display_name":"Ministry of Education of the People's Republic of China"},{"id":"https://openalex.org/G7608752429","display_name":null,"funder_award_id":"Talent","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8108786737","display_name":null,"funder_award_id":"61272373","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8114646031","display_name":null,"funder_award_id":"2016Y","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G8388280645","display_name":null,"funder_award_id":"NCET-13-","funder_id":"https://openalex.org/F4320334924","funder_display_name":"Program for New Century Excellent Talents in University"},{"id":"https://openalex.org/G850960841","display_name":null,"funder_award_id":"2016YFC","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G877393814","display_name":null,"funder_award_id":"NCET-13","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/F4320321106","display_name":"Ministry of Education of the People's Republic of China","ror":"https://ror.org/01mv9t934"},{"id":"https://openalex.org/F4320334924","display_name":"Program for New Century Excellent Talents in University","ror":"https://ror.org/01mv9t934"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2989464093.pdf","grobid_xml":"https://content.openalex.org/works/W2989464093.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1610821757","https://openalex.org/W1614298861","https://openalex.org/W2065963191","https://openalex.org/W2158139315","https://openalex.org/W2165698076","https://openalex.org/W2169491861","https://openalex.org/W2169918010","https://openalex.org/W2250539671","https://openalex.org/W2357069867","https://openalex.org/W2493916176","https://openalex.org/W2769387903","https://openalex.org/W2798381792","https://openalex.org/W2800535933","https://openalex.org/W2896457183","https://openalex.org/W2911489562","https://openalex.org/W2962739339","https://openalex.org/W2963341956","https://openalex.org/W2963403868","https://openalex.org/W2963756346","https://openalex.org/W2963918774","https://openalex.org/W2985294119","https://openalex.org/W4302343710","https://openalex.org/W4385245566"],"related_works":["https://openalex.org/W2593907245","https://openalex.org/W5053386","https://openalex.org/W2394964483","https://openalex.org/W2952732525","https://openalex.org/W4308949089","https://openalex.org/W2405038964","https://openalex.org/W4226048468","https://openalex.org/W3205598244","https://openalex.org/W3211984477","https://openalex.org/W2404580422"],"abstract_inverted_index":{"To":[0],"date,":[1],"a":[2,70,78],"large":[3],"amount":[4],"of":[5,21,85,100],"biomedical":[6,51],"content":[7],"has":[8],"been":[9,56],"published":[10],"in":[11,31,59],"non-English":[12,32],"texts,":[13],"especially":[14],"for":[15,140],"clinical":[16],"documents.":[17],"Therefore,":[18],"it":[19],"is":[20,35,77],"considerable":[22],"significance":[23],"to":[24,43,64,69,73,96,132],"conduct":[25],"Natural":[26],"Language":[27],"Processing":[28],"(NLP)":[29],"research":[30,99],"literature.":[33],"PharmaCoNER":[34,101],"the":[36,60,83,93,98,117,125,133,141],"first":[37],"Named":[38],"Entity":[39],"Recognition":[40],"(NER)":[41],"task":[42,72],"recognize":[44],"chemical":[45],"and":[46,114],"protein":[47],"entities":[48],"from":[49,128],"Spanish":[50],"texts.":[52],"Since":[53],"there":[54],"have":[55],"abundant":[57],"resources":[58,68],"NLP":[61],"field,":[62],"how":[63],"exploit":[65],"these":[66],"existing":[67],"new":[71],"obtain":[74],"competitive":[75],"performance":[76],"meaningful":[79],"study.":[80],"Inspired":[81],"by":[82],"success":[84],"transfer":[86],"learning":[87],"with":[88],"language":[89],"models,":[90],"we":[91,106],"introduce":[92],"BERT":[94,113],"benchmark":[95],"facilitate":[97],"task.":[102,143],"In":[103],"this":[104],"paper,":[105],"evaluate":[107],"two":[108],"baselines":[109],"based":[110],"on":[111,116],"Multilingual":[112],"BioBERT":[115],"Pharma-CoNER":[118],"corpus.":[119],"Experimental":[120],"results":[121],"show":[122],"that":[123],"transferring":[124],"knowledge":[126],"learned":[127],"source":[129],"large-scale":[130],"datasets":[131],"target":[134],"domain":[135],"offers":[136],"an":[137],"effective":[138],"solution":[139],"Phar-maCoNER":[142]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":9}],"updated_date":"2026-03-18T14:38:29.013473","created_date":"2025-10-10T00:00:00"}
