{"id":"https://openalex.org/W4406259989","doi":"https://doi.org/10.1109/bibm62325.2024.10822814","title":"Rethinking Logical Reasoning Design for Document-level Biomedical Relation Extraction","display_name":"Rethinking Logical Reasoning Design for Document-level Biomedical Relation Extraction","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406259989","doi":"https://doi.org/10.1109/bibm62325.2024.10822814"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822814","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822814","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 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/A5100651764","display_name":"Fengyu Zhang","orcid":"https://orcid.org/0000-0002-9372-1362"},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fengyu Zhang","raw_affiliation_strings":["Dalian Maritime University,School of Information Science and Technology,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University,School of Information Science and Technology,Dalian,China","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101242220","display_name":"Jianyuan Yuan","orcid":null},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianyuan Yuan","raw_affiliation_strings":["Dalian Maritime University,School of Information Science and Technology,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University,School of Information Science and Technology,Dalian,China","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111237995","display_name":"Yimeng Qiu","orcid":null},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yimeng Qiu","raw_affiliation_strings":["Dalian Maritime University,School of Information Science and Technology,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University,School of Information Science and Technology,Dalian,China","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023931221","display_name":"Hongfei Lin","orcid":"https://orcid.org/0000-0003-0872-7688"},"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":"Hongfei Lin","raw_affiliation_strings":["Dalian University of Technology,School of Computer Science and Technology,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,School of Computer Science and Technology,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046020427","display_name":"Yijia Zhang","orcid":"https://orcid.org/0000-0002-5843-4675"},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yijia Zhang","raw_affiliation_strings":["Dalian Maritime University,School of Information Science and Technology,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University,School of Information Science and Technology,Dalian,China","institution_ids":["https://openalex.org/I43313876"]}]}],"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":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1356","last_page":"1361"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9962999820709229,"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":0.9962999820709229,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9789000153541565,"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":0.9484999775886536,"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/relationship-extraction","display_name":"Relationship extraction","score":0.7133937478065491},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6887083053588867},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.6586623787879944},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.38979285955429077},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.35121676325798035},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.1683337390422821}],"concepts":[{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.7133937478065491},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6887083053588867},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.6586623787879944},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.38979285955429077},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.35121676325798035},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.1683337390422821}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822814","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822814","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W2346452181","https://openalex.org/W2604314403","https://openalex.org/W2911489562","https://openalex.org/W2920198243","https://openalex.org/W2962859618","https://openalex.org/W3013201962","https://openalex.org/W3093891978","https://openalex.org/W3113440918","https://openalex.org/W3173229273","https://openalex.org/W3188999884","https://openalex.org/W3204348602","https://openalex.org/W4205983734","https://openalex.org/W4285151007","https://openalex.org/W4385574199","https://openalex.org/W4386566720","https://openalex.org/W4386824989"],"related_works":["https://openalex.org/W2976808399","https://openalex.org/W2609844752","https://openalex.org/W4392969631","https://openalex.org/W4285246823","https://openalex.org/W4226278302","https://openalex.org/W4221160509","https://openalex.org/W2547211086","https://openalex.org/W2538200646","https://openalex.org/W1968988659","https://openalex.org/W2888033806"],"abstract_inverted_index":{"Document-level":[0],"biomedical":[1,33,149],"relation":[2,8,75,134],"extraction":[3],"(Bio-DocRE)":[4],"involves":[5],"automatically":[6],"identifying":[7],"facts":[9],"between":[10,74,91,131],"multiple":[11],"entity":[12,30],"pairs":[13,31],"from":[14,41],"a":[15,21,106],"document.":[16],"Logical":[17],"reasoning":[18,40,81,90],"has":[19],"become":[20],"recent":[22],"research":[23],"focus":[24,123],"since":[25],"many":[26],"relations":[27,130],"of":[28,67],"long-distance":[29],"in":[32,86],"documents":[34],"need":[35],"to":[36,122],"be":[37],"predicted":[38],"through":[39],"other":[42],"existing":[43],"relations.":[44],"However,":[45],"this":[46],"task":[47],"faces":[48],"two":[49,147],"crucial":[50],"challenges:":[51],"long":[52],"dependency":[53],"and":[54,69,152],"evidence":[55,79,114],"selection.":[56],"Existing":[57],"graph-based":[58],"or":[59],"transformer-based":[60],"models":[61],"independently":[62],"model":[63,142],"the":[64,88],"internal":[65],"structure":[66],"entities":[68,132],"ignore":[70],"additional":[71],"global":[72],"interactions":[73],"triples.":[76],"In":[77],"addition,":[78],"graph":[80,115],"plays":[82],"an":[83],"important":[84,125],"role":[85],"boosting":[87],"logical":[89,117],"entities,":[92],"but":[93],"it":[94],"is":[95],"ignored":[96],"by":[97],"these":[98,102],"methods.":[99],"To":[100],"tackle":[101],"issues,":[103],"we":[104],"propose":[105],"novel":[107],"Bio-DocRE":[108],"framework":[109],"called":[110],"EGALR":[111,121,141],"based":[112],"on":[113,124,146],"assisted":[116],"reasoning.":[118,135],"This":[119],"allows":[120],"sentences":[126],"while":[127],"predicting":[128],"implicit":[129],"with":[133],"Extensive":[136],"experiments":[137],"show":[138],"that":[139],"our":[140],"achieves":[143],"state-of-the-art":[144],"performance":[145],"widely-used":[148],"datasets,":[150],"CDR":[151],"GDA.":[153]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
