{"id":"https://openalex.org/W4226229083","doi":"https://doi.org/10.1109/bibm52615.2021.9669650","title":"BioIE: Biomedical Information Extraction with Multi-head Attention Enhanced Graph Convolutional Network","display_name":"BioIE: Biomedical Information Extraction with Multi-head Attention Enhanced Graph Convolutional Network","publication_year":2021,"publication_date":"2021-12-09","ids":{"openalex":"https://openalex.org/W4226229083","doi":"https://doi.org/10.1109/bibm52615.2021.9669650"},"language":"en","primary_location":{"id":"doi:10.1109/bibm52615.2021.9669650","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669650","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5102841028","display_name":"Jialun Wu","orcid":"https://orcid.org/0000-0002-9015-7487"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jialun Wu","raw_affiliation_strings":["National Engineering Lab for Big Data Analytics, Xi\u2019an Jiaotong University, Xi\u2019an, China","School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China","National Engineering Lab for Big Data Analytics, Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Engineering Lab for Big Data Analytics, Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"National Engineering Lab for Big Data Analytics, Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100666489","display_name":"Ruonan Zhang","orcid":"https://orcid.org/0000-0002-7860-1231"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ruonan Zhang","raw_affiliation_strings":["Library of Xi\u2019an Jiaotong University, Xi\u2019an, China","Library of Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Library of Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Library of Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030762002","display_name":"Tieliang Gong","orcid":"https://orcid.org/0000-0002-3840-441X"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tieliang Gong","raw_affiliation_strings":["School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100355773","display_name":"Yang Liu","orcid":"https://orcid.org/0000-0002-0367-8189"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Liu","raw_affiliation_strings":["School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065529317","display_name":"Chunbao Wang","orcid":"https://orcid.org/0000-0002-8795-0142"},"institutions":[{"id":"https://openalex.org/I4210121771","display_name":"First Affiliated Hospital of Xi'an Jiaotong University","ror":"https://ror.org/02tbvhh96","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210121771"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chunbao Wang","raw_affiliation_strings":["Department of Pathology, the First Affiliated Hospital of Xi\u2019an Jiaotong University, Xi\u2019an, China","Department of Pathology, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, the First Affiliated Hospital of Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I4210121771"]},{"raw_affiliation_string":"Department of Pathology, the First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I4210121771"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100369793","display_name":"Chen Li","orcid":"https://orcid.org/0000-0002-0079-3106"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chen Li","raw_affiliation_strings":["School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Xi\u2019an Jiaotong University, Xi\u2019an, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Xi'an Jiaotong University, Xi'an, China","institution_ids":["https://openalex.org/I87445476"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"2080","last_page":"2087"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9991999864578247,"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":0.9991999864578247,"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":0.9855999946594238,"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/T11719","display_name":"Data Quality and Management","score":0.9491000175476074,"subfield":{"id":"https://openalex.org/subfields/1803","display_name":"Management Science and Operations Research"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8541536331176758},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.8342351913452148},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.6436467170715332},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5323830842971802},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.5048378109931946},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.487856388092041},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.45391327142715454},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3913518786430359},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3534280061721802},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.23873403668403625}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8541536331176758},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.8342351913452148},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.6436467170715332},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5323830842971802},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.5048378109931946},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.487856388092041},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.45391327142715454},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3913518786430359},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3534280061721802},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.23873403668403625},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","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}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm52615.2021.9669650","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669650","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.7300000190734863,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320311687","display_name":"Ministry of Education","ror":"https://ror.org/03m01yf64"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W2094937180","https://openalex.org/W2128118436","https://openalex.org/W2129767020","https://openalex.org/W2159985898","https://openalex.org/W2279376656","https://openalex.org/W2328458480","https://openalex.org/W2329659234","https://openalex.org/W2341742436","https://openalex.org/W2346452181","https://openalex.org/W2604372572","https://openalex.org/W2611254939","https://openalex.org/W2765245454","https://openalex.org/W2805185296","https://openalex.org/W2883380892","https://openalex.org/W2883749461","https://openalex.org/W2895889524","https://openalex.org/W2911489562","https://openalex.org/W2913694513","https://openalex.org/W2914767245","https://openalex.org/W2963014179","https://openalex.org/W2985301765","https://openalex.org/W2997162759","https://openalex.org/W3127215888","https://openalex.org/W4225814339","https://openalex.org/W4225913214","https://openalex.org/W4226201306","https://openalex.org/W4385245566","https://openalex.org/W6739901393","https://openalex.org/W6758293299","https://openalex.org/W6764036344","https://openalex.org/W6802926554","https://openalex.org/W6803622849","https://openalex.org/W6804230032"],"related_works":["https://openalex.org/W2352298027","https://openalex.org/W4319940250","https://openalex.org/W842810586","https://openalex.org/W2092919065","https://openalex.org/W3138801416","https://openalex.org/W2444550338","https://openalex.org/W2369351710","https://openalex.org/W2594363579","https://openalex.org/W2169232658","https://openalex.org/W2315233710"],"abstract_inverted_index":{"Constructing":[0],"large-scaled":[1],"medical":[2,12,31,107,193],"knowledge":[3],"graphs":[4],"(MKGs)":[5],"can":[6],"significantly":[7],"boost":[8],"healthcare":[9],"applications":[10],"for":[11,77],"surveillance,":[13],"bring":[14],"much":[15],"attention":[16,114],"from":[17,30,102,132,195],"recent":[18],"research.":[19],"An":[20],"essential":[21],"step":[22],"in":[23,44,191],"constructing":[24,78],"large-scale":[25],"MKG":[26],"is":[27],"extracting":[28],"information":[29,34,46,76,127],"reports.":[32,108],"Recently,":[33],"extraction":[35,144],"techniques":[36],"have":[37],"been":[38],"proposed":[39],"and":[40,57,80,105,125,149,153,184,198],"show":[41,162,185],"promising":[42,189],"performance":[43,168,190],"biomedical":[45,63,103,142],"extraction.":[47],"However,":[48],"these":[49],"methods":[50],"only":[51],"consider":[52],"limited":[53],"types":[54],"of":[55,176],"entity":[56,68],"relation":[58,147],"due":[59],"to":[60,73,99,120],"the":[61,82,122,130,133,174],"noisy":[62],"text":[64,104,194],"data":[65],"with":[66],"complex":[67,123],"correlations.":[69],"Thus,":[70],"they":[71],"fail":[72],"provide":[74],"enough":[75],"MKGs":[79],"restrict":[81],"downstream":[83],"applications.":[84],"To":[85],"address":[86],"this":[87],"issue,":[88],"we":[89,172],"propose":[90],"Biomedical":[91],"Information":[92],"Extraction":[93],"(BioIE),":[94],"a":[95,112,154,180],"hybrid":[96],"neural":[97],"network":[98,118],"extract":[100],"relations":[101,124],"unstructured":[106],"Our":[109],"model":[110,138],"utilizes":[111],"multi-head":[113],"enhanced":[115],"graph":[116],"convolutional":[117],"(GCN)":[119],"capture":[121],"context":[126],"while":[128],"resisting":[129],"noise":[131],"data.":[134],"We":[135],"evaluate":[136,173],"our":[137,164,177],"on":[139],"two":[140],"major":[141],"relationship":[143],"tasks,":[145],"chemical-disease":[146],"(CDR)":[148],"chemical-protein":[150],"interaction":[151],"(CPI),":[152],"cross-hospital":[155],"pan-cancer":[156],"pathology":[157],"report":[158],"corpus.":[159],"The":[160],"results":[161],"that":[163,186],"method":[165,178],"achieves":[166,188],"superior":[167],"than":[169],"baselines.":[170],"Furthermore,":[171],"applicability":[175],"under":[179],"transfer":[181],"learning":[182],"setting":[183],"BioIE":[187],"processing":[192],"different":[196],"formats":[197],"writing":[199],"styles.":[200]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":3}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
