{"id":"https://openalex.org/W7126039538","doi":"https://doi.org/10.1109/bibm66473.2025.11356768","title":"ITM-BERT: A Novel Index-Based Triple Match Bert Framework for Biomedical Relation Extraction","display_name":"ITM-BERT: A Novel Index-Based Triple Match Bert Framework for Biomedical Relation Extraction","publication_year":2025,"publication_date":"2025-12-15","ids":{"openalex":"https://openalex.org/W7126039538","doi":"https://doi.org/10.1109/bibm66473.2025.11356768"},"language":null,"primary_location":{"id":"doi:10.1109/bibm66473.2025.11356768","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm66473.2025.11356768","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2025 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100752652","display_name":"Tian Yang","orcid":"https://orcid.org/0000-0003-0800-5810"},"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":"Yang Tian","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022604762","display_name":"Bo Xu","orcid":"https://orcid.org/0000-0003-4135-0683"},"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":"Bo Xu","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124163934","display_name":"Zhikui Chen","orcid":null},"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":"Zhikui Chen","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042620633","display_name":"Zhehuan Zhao","orcid":"https://orcid.org/0000-0002-5001-1352"},"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":"Zhehuan Zhao","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124267800","display_name":"Jianhua Luo","orcid":null},"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":"Jianhua Luo","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087443457","display_name":"Linlin Tian","orcid":null},"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":"Linlin Tian","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124162222","display_name":"Yifei Song","orcid":null},"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":"Yifei Song","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124221640","display_name":"Kun Liang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210127843","display_name":"First Automotive Works (China)","ror":"https://ror.org/0353t4m91","country_code":"CN","type":"company","lineage":["https://openalex.org/I4210127843"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kun Liang","raw_affiliation_strings":["FAW-Volkswagen Automotive Co., Ltd.,Changchun,China"],"affiliations":[{"raw_affiliation_string":"FAW-Volkswagen Automotive Co., Ltd.,Changchun,China","institution_ids":["https://openalex.org/I4210127843"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100607011","display_name":"Hao Li","orcid":"https://orcid.org/0000-0002-2908-9745"},"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":"Hao Li","raw_affiliation_strings":["Dalian University of Technology,Dalian,China"],"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5100752652"],"corresponding_institution_ids":["https://openalex.org/I27357992"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.70181881,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"5892","last_page":"5899"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.6270999908447266,"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":0.6270999908447266,"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":0.265500009059906,"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/T11550","display_name":"Text and Document Classification Technologies","score":0.024700000882148743,"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/benchmark","display_name":"Benchmark (surveying)","score":0.676800012588501},{"id":"https://openalex.org/keywords/class","display_name":"Class (philosophy)","score":0.645799994468689},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.5458999872207642},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.4271000027656555},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.40709999203681946},{"id":"https://openalex.org/keywords/index","display_name":"Index (typography)","score":0.39259999990463257}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7092999815940857},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.676800012588501},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.645799994468689},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5866000056266785},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.5458999872207642},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.4271000027656555},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.42419999837875366},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.40709999203681946},{"id":"https://openalex.org/C2777382242","wikidata":"https://www.wikidata.org/wiki/Q6017816","display_name":"Index (typography)","level":2,"score":0.39259999990463257},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.36739999055862427},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.36550000309944153},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.3644999861717224},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3319000005722046},{"id":"https://openalex.org/C130318100","wikidata":"https://www.wikidata.org/wiki/Q2268914","display_name":"Semantic similarity","level":2,"score":0.32899999618530273},{"id":"https://openalex.org/C184337299","wikidata":"https://www.wikidata.org/wiki/Q1437428","display_name":"Semantics (computer science)","level":2,"score":0.3285999894142151},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.29919999837875366},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.2946000099182129},{"id":"https://openalex.org/C182306322","wikidata":"https://www.wikidata.org/wiki/Q1779371","display_name":"Order (exchange)","level":2,"score":0.2775000035762787}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm66473.2025.11356768","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm66473.2025.11356768","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2025 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.463005930185318,"display_name":"Peace, Justice and strong institutions","id":"https://metadata.un.org/sdg/16"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":22,"referenced_works":["https://openalex.org/W1850865022","https://openalex.org/W1990794790","https://openalex.org/W2096733369","https://openalex.org/W2166474856","https://openalex.org/W2170189740","https://openalex.org/W2264517602","https://openalex.org/W2370746078","https://openalex.org/W2465246611","https://openalex.org/W2485374661","https://openalex.org/W2560748602","https://openalex.org/W2600659824","https://openalex.org/W2755814313","https://openalex.org/W2761525601","https://openalex.org/W2785001576","https://openalex.org/W2910406387","https://openalex.org/W2964348125","https://openalex.org/W2976765180","https://openalex.org/W2984452801","https://openalex.org/W2998702515","https://openalex.org/W3033077186","https://openalex.org/W4206356885","https://openalex.org/W4385572770"],"related_works":[],"abstract_inverted_index":{"Automatically":[0],"extracting":[1],"relationships":[2,58],"between":[3,27,166,173],"entity":[4,56,183],"pairs":[5],"from":[6],"vast":[7],"biomedical":[8],"texts":[9],"presents":[10],"a":[11,80],"challenging":[12],"research":[13],"direction":[14],"with":[15,159,214],"substantial":[16],"practical":[17],"significance.":[18],"For":[19],"example,":[20],"the":[21,25,38,43,49,63,78,119,124,131,137,144,147,151,160,164,171,174,182],"correct":[22,39],"identification":[23],"of":[24,45,55,162],"interaction":[26],"drugs":[28,30],"and":[29,98,136,179,203],"could":[31],"help":[32],"doctors":[33],"guide":[34],"patients":[35],"to":[36,76,117,129,143],"take":[37],"medication,":[40],"thereby":[41],"avoiding":[42],"occurrence":[44],"medical":[46],"errors.":[47],"However,":[48],"same":[50,64,175],"statements":[51],"containing":[52],"different":[53,167],"types":[54],"pair":[57],"are":[59],"easily":[60],"misclassified":[61],"into":[62],"category":[65,185],"by":[66],"classifiers":[67],"because":[68],"they":[69],"share":[70],"consistent":[71],"semantic":[72,133],"information.":[73],"In":[74,187],"order":[75],"solve":[77],"problems,":[79],"new":[81],"Indexbased":[82],"Triple":[83,92],"Match":[84],"BERT(ITM-BERT)":[85],"method":[86,126,154],"is":[87,96,103,115,127,140,149,155,192,211],"proposed":[88],"in":[89],"this":[90,188],"paper.":[91],"loss":[93,153],"training":[94],"strategy":[95],"introduced":[97],"triple":[99,120,138,152],"data":[100,139],"generation":[101],"decision":[102],"made.":[104],"If":[105,122],"an":[106,109],"instance":[107],"has":[108],"identical":[110],"opposite":[111],"instance,":[112],"no":[113],"index":[114,125],"used":[116,128,156,196],"form":[118],"data.":[121],"not,":[123],"match":[130],"global":[132],"information":[134],"similarity,":[135],"constructed":[141],"according":[142],"rules.":[145],"After":[146],"construction":[148],"completed,":[150],"for":[157],"training,":[158],"purpose":[161],"increasing":[163],"distance":[165,172],"class":[168,176],"instances,":[169],"making":[170],"instances":[177],"closer,":[178],"finally":[180],"classifying":[181],"relationship":[184],"correctly.":[186],"paper,":[189],"our":[190,209],"approach":[191,210],"validated":[193],"on":[194],"widely":[195],"benchmark":[197],"datasets":[198],"such":[199],"as":[200],"DDI2013,":[201],"BioInfer,":[202],"AIMed.":[204],"The":[205],"results":[206],"show":[207],"that":[208],"advanced":[212],"compared":[213],"other":[215],"models.":[216]},"counts_by_year":[],"updated_date":"2026-02-23T20:09:44.859080","created_date":"2026-01-30T00:00:00"}
