{"id":"https://openalex.org/W4392932379","doi":"https://doi.org/10.1109/tcbb.2024.3376566","title":"Boundary-Aware Dual Biaffine Model for Sequential Sentence Classification in Biomedical Documents","display_name":"Boundary-Aware Dual Biaffine Model for Sequential Sentence Classification in Biomedical Documents","publication_year":2024,"publication_date":"2024-03-18","ids":{"openalex":"https://openalex.org/W4392932379","doi":"https://doi.org/10.1109/tcbb.2024.3376566","pmid":"https://pubmed.ncbi.nlm.nih.gov/38470596"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2024.3376566","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2024.3376566","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5103209723","display_name":"Junwen Duan","orcid":"https://orcid.org/0000-0003-4955-9270"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junwen Duan","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China","School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China"],"raw_orcid":"https://orcid.org/0000-0003-4955-9270","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062168193","display_name":"Huai Guo","orcid":"https://orcid.org/0009-0006-3994-1010"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Huai Guo","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China","School of Computer Science and Engineering, Central South University, Changsha, Hunan, China"],"raw_orcid":"https://orcid.org/0009-0006-3994-1010","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115547290","display_name":"Han Jiang","orcid":"https://orcid.org/0009-0000-6981-4385"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Han Jiang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China","School of Computer Science and Engineering, Central South University, Changsha, Hunan, China"],"raw_orcid":"https://orcid.org/0009-0000-6981-4385","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100702161","display_name":"Fei Guo","orcid":"https://orcid.org/0000-0001-8346-0798"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fei Guo","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China","School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China"],"raw_orcid":"https://orcid.org/0000-0001-8346-0798","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100438360","display_name":"Jianxin Wang","orcid":"https://orcid.org/0000-0003-1516-0480"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianxin Wang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University, Changsha, China","Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China","School of Computer Science and Engineering, Central South University, Changsha, Hunan, China"],"raw_orcid":"https://orcid.org/0000-0003-1516-0480","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Provincial Key Lab on Bioinformatics, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University, Changsha, Hunan, China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":null,"apc_paid":null,"fwci":0.486,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.68989358,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":97},"biblio":{"volume":"21","issue":"5","first_page":"1202","last_page":"1210"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9983000159263611,"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":0.9983000159263611,"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":0.992900013923645,"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/T13629","display_name":"Text Readability and Simplification","score":0.989300012588501,"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":0.8337496519088745},{"id":"https://openalex.org/keywords/sentence","display_name":"Sentence","score":0.6463296413421631},{"id":"https://openalex.org/keywords/automatic-summarization","display_name":"Automatic summarization","score":0.6111961603164673},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.5199859738349915},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5008878707885742},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4454793632030487},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4437873363494873},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3329842984676361}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8337496519088745},{"id":"https://openalex.org/C2777530160","wikidata":"https://www.wikidata.org/wiki/Q41796","display_name":"Sentence","level":2,"score":0.6463296413421631},{"id":"https://openalex.org/C170858558","wikidata":"https://www.wikidata.org/wiki/Q1394144","display_name":"Automatic summarization","level":2,"score":0.6111961603164673},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.5199859738349915},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5008878707885742},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4454793632030487},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4437873363494873},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3329842984676361},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","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}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2024.3376566","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2024.3376566","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38470596","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38470596","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4785461891","display_name":null,"funder_award_id":"U22A2041","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G611205877","display_name":null,"funder_award_id":"2021YFF1201200","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program 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/F4320321514","display_name":"Central South University","ror":"https://ror.org/00f1zfq44"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W1498436455","https://openalex.org/W1945616565","https://openalex.org/W2064675550","https://openalex.org/W2133564696","https://openalex.org/W2147994374","https://openalex.org/W2885925344","https://openalex.org/W2886946814","https://openalex.org/W2911489562","https://openalex.org/W2963691697","https://openalex.org/W2966702003","https://openalex.org/W2970217403","https://openalex.org/W2970641574","https://openalex.org/W3014399069","https://openalex.org/W3016407396","https://openalex.org/W3101587314","https://openalex.org/W3174474598","https://openalex.org/W4241564561","https://openalex.org/W4300996741","https://openalex.org/W6636510571","https://openalex.org/W6640425456","https://openalex.org/W6679434410","https://openalex.org/W6713316921","https://openalex.org/W6730161283","https://openalex.org/W6745097924","https://openalex.org/W6755207826","https://openalex.org/W6757817989"],"related_works":["https://openalex.org/W2366403280","https://openalex.org/W1495108544","https://openalex.org/W2091301346","https://openalex.org/W3148229873","https://openalex.org/W4389760904","https://openalex.org/W2150160875","https://openalex.org/W4242223894","https://openalex.org/W4306886878","https://openalex.org/W1517524280","https://openalex.org/W4323520239"],"abstract_inverted_index":{"Assigning":[0],"appropriate":[1],"rhetorical":[2],"roles,":[3],"such":[4],"as":[5],"\"background,\"":[6],"\"intervention,\"":[7],"and":[8,24,29,34,102,109,138,157,160,180,192,201],"\"outcome,\"":[9],"to":[10,21,81,106,153],"sentences":[11,85],"in":[12,51,113],"biomedical":[13,114],"documents":[14,100,137],"can":[15,75],"streamline":[16],"the":[17,43,63,68,82,96,125,133],"process":[18],"for":[19,26,40],"physicians":[20],"locate":[22],"evidence":[23],"resources":[25],"medical":[27],"treatment":[28],"decision-making.":[30],"While":[31],"sequence":[32],"labeling":[33,112],"span-based":[35],"methods":[36],"are":[37],"frequently":[38],"employed":[39],"this":[41],"task,":[42],"former":[44],"disregards":[45],"a":[46,52,122,143,149],"document's":[47],"semantic":[48,55,97,134],"structure,":[49],"resulting":[50],"lack":[53],"of":[54,70,84,99,136],"coherence":[56],"across":[57],"continuous":[58],"sentences.":[59],"Span-based":[60],"approaches,":[61],"on":[62,170,196,210],"other":[64],"hand,":[65],"either":[66],"necessitate":[67],"enumeration":[69],"all":[71],"potential":[72],"spans,":[73],"which":[74,130],"be":[76],"time-consuming,":[77],"or":[78],"may":[79],"lead":[80],"misclassification":[83],"over":[86],"extended":[87],"spans.":[88],"Consequently,":[89],"an":[90],"approach":[91,169,188],"is":[92],"required":[93],"that":[94,186],"models":[95,132],"structure":[98,135],"explicitly":[101,131],"captures":[103],"boundary":[104,140],"information":[105,141],"achieve":[107,161],"precise":[108],"effective":[110],"sentence":[111],"documents.":[115],"To":[116],"address":[117],"these":[118],"challenges,":[119],"we":[120],"propose":[121],"new":[123],"approach,":[124],"boundary-aware":[126],"dual":[127,144],"biaffine":[128,145],"model,":[129],"incorporates":[139],"via":[142],"layer.":[146],"We":[147,166],"introduce":[148],"dynamic":[150],"programming":[151],"algorithm":[152],"minimize":[154],"missing":[155],"labels":[156],"overlapping":[158],"predictions,":[159],"globally":[162],"optimal":[163],"decoding":[164],"results.":[165],"evaluate":[167],"our":[168,187,204],"three":[171],"benchmark":[172],"datasets,":[173],"namely":[174],"PubMed":[175,197],"20":[176,198],"k":[177,199],"RCT,":[178],"PubMed-PICO":[179],"NICTA-PIBOSO.":[181,211],"The":[182],"experimental":[183],"results":[184,209],"demonstrate":[185],"outperforms":[189],"strong":[190],"baselines":[191],"achieves":[193,207],"state-of-the-art":[194],"performance":[195],"RCT":[200],"PubMed-PICO.":[202],"Additionally,":[203],"method":[205],"also":[206],"competitive":[208]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
