{"id":"https://openalex.org/W3163785270","doi":"https://doi.org/10.1145/3448734.3450772","title":"Extraction of gene-disease association from literature using BioBERT","display_name":"Extraction of gene-disease association from literature using BioBERT","publication_year":2021,"publication_date":"2021-01-28","ids":{"openalex":"https://openalex.org/W3163785270","doi":"https://doi.org/10.1145/3448734.3450772","mag":"3163785270"},"language":"en","primary_location":{"id":"doi:10.1145/3448734.3450772","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3448734.3450772","pdf_url":null,"source":{"id":"https://openalex.org/S4306531993","display_name":"The 2nd International Conference on Computing and Data Science","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":"The 2nd International Conference on Computing and Data Science","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/A5089760469","display_name":"Chuan Deng","orcid":null},"institutions":[{"id":"https://openalex.org/I10535382","display_name":"Chongqing University of Posts and Telecommunications","ror":"https://ror.org/03dgaqz26","country_code":"CN","type":"education","lineage":["https://openalex.org/I10535382"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Chuan Deng","raw_affiliation_strings":["Chongqing University of Posts and Telecommunications"],"affiliations":[{"raw_affiliation_string":"Chongqing University of Posts and Telecommunications","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027190252","display_name":"Jiahui Zou","orcid":"https://orcid.org/0000-0002-3145-6807"},"institutions":[{"id":"https://openalex.org/I10535382","display_name":"Chongqing University of Posts and Telecommunications","ror":"https://ror.org/03dgaqz26","country_code":"CN","type":"education","lineage":["https://openalex.org/I10535382"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiahui Zou","raw_affiliation_strings":["Chongqing University of Posts and Telecommunications"],"affiliations":[{"raw_affiliation_string":"Chongqing University of Posts and Telecommunications","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102000816","display_name":"Jingwen Deng","orcid":"https://orcid.org/0000-0002-5314-8071"},"institutions":[{"id":"https://openalex.org/I10535382","display_name":"Chongqing University of Posts and Telecommunications","ror":"https://ror.org/03dgaqz26","country_code":"CN","type":"education","lineage":["https://openalex.org/I10535382"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingwen Deng","raw_affiliation_strings":["Chongqing University of Posts and Telecommunications"],"affiliations":[{"raw_affiliation_string":"Chongqing University of Posts and Telecommunications","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048591796","display_name":"Mingze Bai","orcid":"https://orcid.org/0000-0002-9782-2056"},"institutions":[{"id":"https://openalex.org/I10535382","display_name":"Chongqing University of Posts and Telecommunications","ror":"https://ror.org/03dgaqz26","country_code":"CN","type":"education","lineage":["https://openalex.org/I10535382"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mingze Bai","raw_affiliation_strings":["Chongqing University of Posts and Telecommunications"],"affiliations":[{"raw_affiliation_string":"Chongqing University of Posts and Telecommunications","institution_ids":["https://openalex.org/I10535382"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5089760469"],"corresponding_institution_ids":["https://openalex.org/I10535382"],"apc_list":null,"apc_paid":null,"fwci":2.0751,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.84758364,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9995999932289124,"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":0.9995999932289124,"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":0.9958000183105469,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9783999919891357,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biomedical-text-mining","display_name":"Biomedical text mining","score":0.6690916419029236},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6617444157600403},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5594545602798462},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.5365429520606995},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.47532251477241516},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4664005637168884},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4376697540283203},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.4365715980529785},{"id":"https://openalex.org/keywords/knowledge-extraction","display_name":"Knowledge extraction","score":0.4170384407043457},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3799947500228882},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3774954080581665},{"id":"https://openalex.org/keywords/text-mining","display_name":"Text mining","score":0.2808351516723633},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.11356192827224731},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08893740177154541},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.08831721544265747}],"concepts":[{"id":"https://openalex.org/C165141518","wikidata":"https://www.wikidata.org/wiki/Q4915126","display_name":"Biomedical text mining","level":3,"score":0.6690916419029236},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6617444157600403},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5594545602798462},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.5365429520606995},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.47532251477241516},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4664005637168884},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4376697540283203},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.4365715980529785},{"id":"https://openalex.org/C120567893","wikidata":"https://www.wikidata.org/wiki/Q1582085","display_name":"Knowledge extraction","level":2,"score":0.4170384407043457},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3799947500228882},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3774954080581665},{"id":"https://openalex.org/C71472368","wikidata":"https://www.wikidata.org/wiki/Q676880","display_name":"Text mining","level":2,"score":0.2808351516723633},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.11356192827224731},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08893740177154541},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.08831721544265747},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3448734.3450772","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3448734.3450772","pdf_url":null,"source":{"id":"https://openalex.org/S4306531993","display_name":"The 2nd International Conference on Computing and Data Science","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":"The 2nd International Conference on Computing and Data Science","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.6899999976158142}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W1998165633","https://openalex.org/W2052217781","https://openalex.org/W2114850508","https://openalex.org/W2801988201","https://openalex.org/W2884668708","https://openalex.org/W2911489562","https://openalex.org/W2948909602","https://openalex.org/W2967690619","https://openalex.org/W2998616814","https://openalex.org/W6766960179"],"related_works":["https://openalex.org/W3004288456","https://openalex.org/W2016355461","https://openalex.org/W4362496998","https://openalex.org/W2184397297","https://openalex.org/W2368651715","https://openalex.org/W2386938185","https://openalex.org/W2068844411","https://openalex.org/W1663435917","https://openalex.org/W2810079151","https://openalex.org/W1986386500"],"abstract_inverted_index":{"With":[0],"the":[1,76,97,115,133,137],"rapid":[2],"growth":[3],"of":[4,12,20,78,82,108,118],"biomedical":[5,58,72,116],"literatures,":[6],"there":[7],"are":[8],"a":[9,52,63,79,89],"large":[10,80],"amount":[11,81],"bio-text":[13,31],"data":[14],"to":[15,95,111,125,131],"be":[16,123],"exploited.":[17],"A":[18],"wealth":[19],"knowledge":[21],"concerning":[22],"diseases":[23],"associated":[24],"with":[25,56],"genes":[26],"is":[27,33],"present":[28],"in":[29,84,114,128,136],"those":[30],"which":[32],"important":[34],"for":[35,45],"studies":[36],"like":[37],"drug-target":[38],"discovery,":[39],"even":[40],"provide":[41,88],"personalized":[42],"medical":[43],"treatment":[44],"different":[46],"patients'":[47],"genome":[48],"conditions.":[49],"BioBERT":[50,94],"as":[51],"pre-trained":[53,68],"BERT":[54],"model":[55],"large-scale":[57],"corpora,":[59],"was":[60],"proved":[61],"has":[62],"great":[64],"performance":[65],"over":[66],"other":[67],"language":[69,120],"models":[70],"on":[71],"datasets.":[73],"To":[74],"make":[75,126],"use":[77,93],"bio-text,":[83,101],"this":[85],"paper":[86],"we":[87],"good":[90],"practice":[91],"that":[92],"extract":[96],"gene-disease":[98],"associations":[99],"from":[100],"and":[102,122],"it":[103],"achieved":[104],"an":[105],"overall":[106],"F-score":[107],"79.98%.":[109],"Hoping":[110],"inspire":[112],"researchers":[113],"field":[117],"natural":[119],"processing":[121],"able":[124],"applications":[127],"related":[129],"fields":[130],"solve":[132],"problems":[134],"encountered":[135],"research.":[138]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}