{"id":"https://openalex.org/W3212619984","doi":"https://doi.org/10.1186/s12911-021-01614-7","title":"Drug knowledge discovery via multi-task learning and pre-trained models","display_name":"Drug knowledge discovery via multi-task learning and pre-trained models","publication_year":2021,"publication_date":"2021-11-01","ids":{"openalex":"https://openalex.org/W3212619984","doi":"https://doi.org/10.1186/s12911-021-01614-7","mag":"3212619984","pmid":"https://pubmed.ncbi.nlm.nih.gov/34789238"},"language":"en","primary_location":{"id":"doi:10.1186/s12911-021-01614-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12911-021-01614-7","pdf_url":"https://bmcmedinformdecismak.biomedcentral.com/track/pdf/10.1186/s12911-021-01614-7","source":{"id":"https://openalex.org/S107516304","display_name":"BMC Medical Informatics and Decision Making","issn_l":"1472-6947","issn":["1472-6947"],"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 Medical Informatics and Decision Making","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcmedinformdecismak.biomedcentral.com/track/pdf/10.1186/s12911-021-01614-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100365835","display_name":"Dongfang Li","orcid":"https://orcid.org/0009-0008-1790-9022"},"institutions":[{"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":"Dongfang Li","raw_affiliation_strings":["Harbin Institute of Technology (Shenzhen), Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031742177","display_name":"Ying Xiong","orcid":"https://orcid.org/0000-0001-7423-2937"},"institutions":[{"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":"Ying Xiong","raw_affiliation_strings":["Harbin Institute of Technology (Shenzhen), Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083079672","display_name":"Baotian Hu","orcid":"https://orcid.org/0000-0001-7490-684X"},"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":true,"raw_author_name":"Baotian Hu","raw_affiliation_strings":["Harbin Institute of Technology (Shenzhen), Shenzhen, China. hubaotian@hit.edu.cn","Harbin Institute of Technology (Shenzhen), Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China. hubaotian@hit.edu.cn","institution_ids":["https://openalex.org/I158809036"]},{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China","institution_ids":["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/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":["Harbin Institute of Technology (Shenzhen), Shenzhen, China","Peng Cheng Laboratory, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China","institution_ids":["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/A5063233389","display_name":"Weihua Peng","orcid":"https://orcid.org/0000-0003-3380-6409"},"institutions":[{"id":"https://openalex.org/I98301712","display_name":"Baidu (China)","ror":"https://ror.org/03vs3wt56","country_code":"CN","type":"company","lineage":["https://openalex.org/I98301712"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Weihua Peng","raw_affiliation_strings":["Baidu, International Technology (Shenzhen) Co., Ltd, Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baidu, International Technology (Shenzhen) Co., Ltd, Shenzhen, China","institution_ids":["https://openalex.org/I98301712"]}]},{"author_position":"last","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/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":true,"raw_author_name":"Qingcai Chen","raw_affiliation_strings":["Harbin Institute of Technology (Shenzhen), Shenzhen, China. qingcai.chen@hit.edu.cn","Peng Cheng Laboratory, Shenzhen, China. qingcai.chen@hit.edu.cn","Peng Cheng Laboratory, Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0001-8473-7293","affiliations":[{"raw_affiliation_string":"Harbin Institute of Technology (Shenzhen), Shenzhen, China. qingcai.chen@hit.edu.cn","institution_ids":["https://openalex.org/I158809036"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China. qingcai.chen@hit.edu.cn","institution_ids":["https://openalex.org/I4210136793"]},{"raw_affiliation_string":"Peng Cheng Laboratory, Shenzhen, China","institution_ids":["https://openalex.org/I4210136793"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5083079672","https://openalex.org/A5101895423"],"corresponding_institution_ids":["https://openalex.org/I158809036","https://openalex.org/I204983213","https://openalex.org/I4210136793"],"apc_list":{"value":1570,"currency":"GBP","value_usd":1925},"apc_paid":{"value":1570,"currency":"GBP","value_usd":1925},"fwci":0.1481,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.45822648,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"21","issue":"S9","first_page":"251","last_page":"251"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9233999848365784,"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":0.9233999848365784,"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":0.025200000032782555,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.02239999920129776,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/health-informatics","display_name":"Health informatics","score":0.7356290221214294},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.6486189365386963},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6279255747795105},{"id":"https://openalex.org/keywords/drug-discovery","display_name":"Drug discovery","score":0.5381110310554504},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.43426331877708435},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.42978692054748535},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2297268509864807},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1394621729850769},{"id":"https://openalex.org/keywords/public-health","display_name":"Public health","score":0.11894911527633667},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.09504586458206177},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07446101307868958},{"id":"https://openalex.org/keywords/nursing","display_name":"Nursing","score":0.0731261670589447}],"concepts":[{"id":"https://openalex.org/C145642194","wikidata":"https://www.wikidata.org/wiki/Q870895","display_name":"Health informatics","level":3,"score":0.7356290221214294},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.6486189365386963},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6279255747795105},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.5381110310554504},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.43426331877708435},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.42978692054748535},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2297268509864807},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1394621729850769},{"id":"https://openalex.org/C138816342","wikidata":"https://www.wikidata.org/wiki/Q189603","display_name":"Public health","level":2,"score":0.11894911527633667},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.09504586458206177},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07446101307868958},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0731261670589447},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004364","descriptor_name":"Pharmaceutical Preparations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"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":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063369","descriptor_name":"Knowledge Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12911-021-01614-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12911-021-01614-7","pdf_url":"https://bmcmedinformdecismak.biomedcentral.com/track/pdf/10.1186/s12911-021-01614-7","source":{"id":"https://openalex.org/S107516304","display_name":"BMC Medical Informatics and Decision Making","issn_l":"1472-6947","issn":["1472-6947"],"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 Medical Informatics and Decision Making","raw_type":"journal-article"},{"id":"pmid:34789238","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34789238","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 medical informatics and decision making","raw_type":null},{"id":"pmh:oai:doaj.org/article:fab7c446aec74a4f9d9fe59723779ee3","is_oa":true,"landing_page_url":"https://doaj.org/article/fab7c446aec74a4f9d9fe59723779ee3","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 Medical Informatics and Decision Making, Vol 21, Iss S9, Pp 1-9 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8596901","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8596901","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 Med Inform Decis Mak","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12911-021-01614-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12911-021-01614-7","pdf_url":"https://bmcmedinformdecismak.biomedcentral.com/track/pdf/10.1186/s12911-021-01614-7","source":{"id":"https://openalex.org/S107516304","display_name":"BMC Medical Informatics and Decision Making","issn_l":"1472-6947","issn":["1472-6947"],"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 Medical Informatics and Decision Making","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4000000059604645,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G3570341100","display_name":null,"funder_award_id":"62006061","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7141556541","display_name":null,"funder_award_id":"61872113","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320318547","display_name":"Baidu","ror":"https://ror.org/03vs3wt56"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3212619984.pdf","grobid_xml":"https://content.openalex.org/works/W3212619984.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W42510333","https://openalex.org/W1981276685","https://openalex.org/W2129113459","https://openalex.org/W2147880316","https://openalex.org/W2168041406","https://openalex.org/W2169099542","https://openalex.org/W2183114698","https://openalex.org/W2296283641","https://openalex.org/W2346452181","https://openalex.org/W2394812591","https://openalex.org/W2396881363","https://openalex.org/W2626778328","https://openalex.org/W2743028754","https://openalex.org/W2790808809","https://openalex.org/W2890830728","https://openalex.org/W2896002881","https://openalex.org/W2911489562","https://openalex.org/W2912030204","https://openalex.org/W2916562486","https://openalex.org/W2923014074","https://openalex.org/W2936215830","https://openalex.org/W2937845937","https://openalex.org/W2941868238","https://openalex.org/W2953846371","https://openalex.org/W2963026768","https://openalex.org/W2963716420","https://openalex.org/W2964110616","https://openalex.org/W2970771982","https://openalex.org/W2971258845","https://openalex.org/W2975998869","https://openalex.org/W2987875462","https://openalex.org/W2988868092","https://openalex.org/W2996825178","https://openalex.org/W2997876626","https://openalex.org/W3034617555","https://openalex.org/W3105491236","https://openalex.org/W4234762960"],"related_works":["https://openalex.org/W2480711475","https://openalex.org/W4206379684","https://openalex.org/W2061997414","https://openalex.org/W1587522533","https://openalex.org/W2366105490","https://openalex.org/W2580680567","https://openalex.org/W2124655189","https://openalex.org/W1996411829","https://openalex.org/W1984523482","https://openalex.org/W4285170202"],"abstract_inverted_index":{"BACKGROUND:":[0],"Drug":[1],"repurposing":[2,109],"is":[3,12,31,58,235],"to":[4,39,107,117,150,213,286,410],"find":[5],"new":[6,16],"indications":[7],"of":[8,49,121,130,226,253,260,262,270,283,290,293,374,399],"approved":[9,19],"drugs,":[10],"which":[11,36,145,163,317],"essential":[13],"for":[14,18,43,86,187,341],"investigating":[15],"uses":[17],"or":[20],"investigational":[21],"drug":[22,44,108],"efficiency.":[23],"The":[24,46,334],"active":[25,377],"gene":[26,151],"annotation":[27,373],"corpus":[28,57,381],"(named":[29],"AGAC)":[30],"annotated":[32],"by":[33,60,199,327,330],"human":[34],"experts,":[35],"was":[37],"developed":[38],"support":[40],"knowledge":[41,189,218,254,413],"discovery":[42],"repurposing.":[45],"AGAC":[47,69,101,231],"track":[48,70],"the":[50,64,100,128,131,139,165,183,196,217,224,230,251,257,280,288,304,323,328,337,342,371,408],"BioNLP":[51],"Open":[52],"Shared":[53],"Tasks":[54],"using":[55,200,245],"this":[56,80,171],"organized":[59],"EMNLP-BioNLP":[61],"2019,":[62],"where":[63],"\"Selective":[65],"annotation\"":[66],"attribution":[67],"makes":[68],"more":[71],"challenging":[72],"than":[73],"other":[74],"traditional":[75],"sequence":[76],"labeling":[77],"tasks.":[78,264],"In":[79,170],"work,":[81,172],"we":[82,134,154,173,194,351],"show":[83,250,382],"our":[84,111,227,294,301],"methods":[85,402],"trigger":[87],"word":[88],"detection":[89],"(Task":[90,97],"1)":[91],"and":[92,205,215,222,243,256,310,346],"its":[93],"thematic":[94,166],"role":[95],"identification":[96],"2)":[98],"in":[99,182,314,332,358],"track.":[102],"As":[103],"a":[104,159,201,267,353,362,397],"step":[105],"forward":[106],"research,":[110],"work":[112],"can":[113,406],"also":[114,274],"be":[115],"applied":[116],"large-scale":[118],"automatic":[119],"extraction":[120,161,185,348,401],"medical":[122,140],"text":[123],"knowledge.":[124],"METHODS:":[125],"To":[126],"meet":[127],"challenges":[129],"two":[132,263],"tasks,":[133],"consider":[135],"Task":[136,156,284,315,359],"1":[137,285],"as":[138,158],"name":[141],"entity":[142,344],"recognition":[143,345],"(NER),":[144],"cultivates":[146],"molecular":[147],"phenomena":[148],"related":[149],"mutation.":[152],"And":[153,350],"regard":[155],"2":[157,360],"relation":[160,347],"task,":[162],"captures":[164],"roles":[167],"between":[168],"entities.":[169],"exploit":[174],"pre-trained":[175,385],"biomedical":[176,386],"language":[177,387],"representation":[178,388],"models":[179,261,389],"(e.g.,":[180],"BioBERT)":[181,395],"information":[184,400],"pipeline":[186],"mutation-disease":[188,412],"collection":[190],"from":[191,219,414],"PubMed.":[192,415],"Moreover,":[193],"design":[195],"fine-tuning":[197],"framework":[198],"multi-task":[202,246,404],"learning":[203,405],"technique":[204],"extra":[206],"features.":[207],"We":[208,265,273],"further":[209],"investigate":[210],"different":[211],"approaches":[212],"consolidate":[214],"transfer":[216],"varying":[220],"sources":[221],"illustrate":[223],"performance":[225,268],"model":[228,302,335],"on":[229,237,279,370],"corpus.":[232],"Our":[233],"approach":[234],"based":[236],"fine-tuned":[238],"BERT,":[239,242,391,393],"BioBERT,":[240],"NCBI":[241,392],"ClinicalBERT":[244],"learning.":[247],"Further":[248],"experiments":[249],"effectiveness":[252,289],"transformation":[255],"ensemble":[258],"integration":[259],"conduct":[266],"comparison":[269],"various":[271],"algorithms.":[272],"do":[275],"an":[276],"ablation":[277],"study":[278],"development":[281],"set":[282],"examine":[287],"each":[291],"component":[292],"method.":[295],"RESULTS:":[296],"Compared":[297],"with":[298,361,376,403],"competitor":[299],"methods,":[300],"obtained":[303,352],"highest":[305],"Precision":[306],"(0.63),":[307],"Recall":[308],"(0.56),":[309],"F-score":[311,356],"value":[312],"(0.60)":[313],"1,":[316],"ranks":[318],"first":[319],"place.":[320],"It":[321],"outperformed":[322],"baseline":[324],"method":[325],"provided":[326],"organizers":[329],"0.10":[331],"F-score.":[333],"shared":[336],"same":[338],"encoding":[339],"layers":[340],"named":[343],"parts.":[349],"second":[354],"high":[355],"(0.25)":[357],"simple":[363],"but":[364],"effective":[365],"framework.":[366],"CONCLUSIONS:":[367],"Experimental":[368],"results":[369],"benchmark":[372],"genes":[375],"mutation-centric":[378],"function":[379],"changes":[380],"that":[383],"integrating":[384],"(i.e.,":[390],"ClinicalBERT,":[394],"into":[396],"pipe":[398],"improve":[407],"ability":[409],"collect":[411]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
