{"id":"https://openalex.org/W4405387240","doi":"https://doi.org/10.1093/bioinformatics/btae648","title":"Knowledge mining of brain connectivity in massive literature based on transfer learning","display_name":"Knowledge mining of brain connectivity in massive literature based on transfer learning","publication_year":2024,"publication_date":"2024-11-28","ids":{"openalex":"https://openalex.org/W4405387240","doi":"https://doi.org/10.1093/bioinformatics/btae648","pmid":"https://pubmed.ncbi.nlm.nih.gov/39656949"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae648","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/12/btae648/61023856/btae648.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/40/12/btae648/61023856/btae648.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5039209219","display_name":"Xiaokang Chai","orcid":"https://orcid.org/0009-0009-6441-6658"},"institutions":[{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaokang Chai","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014915452","display_name":"Sile An","orcid":"https://orcid.org/0000-0002-7253-8729"},"institutions":[{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sile An","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032257764","display_name":"Simeng Chen","orcid":"https://orcid.org/0009-0005-7418-9920"},"institutions":[{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Simeng Chen","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101428044","display_name":"Wenwei Li","orcid":"https://orcid.org/0009-0005-3087-1143"},"institutions":[{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenwei Li","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056971322","display_name":"Zhao Feng","orcid":"https://orcid.org/0000-0001-5035-7655"},"institutions":[{"id":"https://openalex.org/I20942203","display_name":"Hainan University","ror":"https://ror.org/03q648j11","country_code":"CN","type":"education","lineage":["https://openalex.org/I20942203"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhao Feng","raw_affiliation_strings":["Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,","institution_ids":["https://openalex.org/I20942203"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073996645","display_name":"Xiangning Li","orcid":"https://orcid.org/0000-0002-3747-2824"},"institutions":[{"id":"https://openalex.org/I20942203","display_name":"Hainan University","ror":"https://ror.org/03q648j11","country_code":"CN","type":"education","lineage":["https://openalex.org/I20942203"]},{"id":"https://openalex.org/I4210125878","display_name":"Suzhou Research Institute","ror":"https://ror.org/03ebk0c60","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210125878"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangning Li","raw_affiliation_strings":["HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,","Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,","institution_ids":["https://openalex.org/I4210125878"]},{"raw_affiliation_string":"Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,","institution_ids":["https://openalex.org/I20942203"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101888612","display_name":"Hui Gong","orcid":"https://orcid.org/0000-0002-2389-7688"},"institutions":[{"id":"https://openalex.org/I4210125878","display_name":"Suzhou Research Institute","ror":"https://ror.org/03ebk0c60","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210125878"]},{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hui Gong","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]},{"raw_affiliation_string":"HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,","institution_ids":["https://openalex.org/I4210125878"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056033605","display_name":"Qingming Luo","orcid":null},"institutions":[{"id":"https://openalex.org/I20942203","display_name":"Hainan University","ror":"https://ror.org/03q648j11","country_code":"CN","type":"education","lineage":["https://openalex.org/I20942203"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingming Luo","raw_affiliation_strings":["Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,","institution_ids":["https://openalex.org/I20942203"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017229676","display_name":"Anan Li","orcid":"https://orcid.org/0000-0002-5877-4813"},"institutions":[{"id":"https://openalex.org/I20942203","display_name":"Hainan University","ror":"https://ror.org/03q648j11","country_code":"CN","type":"education","lineage":["https://openalex.org/I20942203"]},{"id":"https://openalex.org/I4210125878","display_name":"Suzhou Research Institute","ror":"https://ror.org/03ebk0c60","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210125878"]},{"id":"https://openalex.org/I4210138186","display_name":"Wuhan National Laboratory for Optoelectronics","ror":"https://ror.org/03c9ncn37","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210138186"]},{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Anan Li","raw_affiliation_strings":["Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,","Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,"],"raw_orcid":"https://orcid.org/0000-0002-5877-4813","affiliations":[{"raw_affiliation_string":"Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology , Wuhan 430074,","institution_ids":["https://openalex.org/I4210138186","https://openalex.org/I47720641"]},{"raw_affiliation_string":"HUST-Suzhou Institute for Brainsmatics, JITRI , Suzhou 215123,","institution_ids":["https://openalex.org/I4210125878"]},{"raw_affiliation_string":"Key Laboratory of Biomedical Engineering of Hainan Province, School of Biomedical Engineering, Hainan University , Haikou 570228,","institution_ids":["https://openalex.org/I20942203"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5017229676"],"corresponding_institution_ids":["https://openalex.org/I20942203","https://openalex.org/I4210125878","https://openalex.org/I4210138186","https://openalex.org/I47720641"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.1608,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.51332726,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"40","issue":"12","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.26460000872612,"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":0.26460000872612,"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/T10241","display_name":"Functional Brain Connectivity Studies","score":0.2142000049352646,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13702","display_name":"Machine Learning in Healthcare","score":0.0778999999165535,"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":0.7735711932182312},{"id":"https://openalex.org/keywords/leverage","display_name":"Leverage (statistics)","score":0.7078825831413269},{"id":"https://openalex.org/keywords/relationship-extraction","display_name":"Relationship extraction","score":0.581612229347229},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5740067958831787},{"id":"https://openalex.org/keywords/identifier","display_name":"Identifier","score":0.5716568231582642},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.5046511888504028},{"id":"https://openalex.org/keywords/comprehension","display_name":"Comprehension","score":0.4762187898159027},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.44353216886520386},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4295901656150818},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.37033212184906006},{"id":"https://openalex.org/keywords/information-extraction","display_name":"Information extraction","score":0.359076589345932},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.1920788288116455}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7735711932182312},{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.7078825831413269},{"id":"https://openalex.org/C153604712","wikidata":"https://www.wikidata.org/wiki/Q7310755","display_name":"Relationship extraction","level":3,"score":0.581612229347229},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5740067958831787},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.5716568231582642},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.5046511888504028},{"id":"https://openalex.org/C511192102","wikidata":"https://www.wikidata.org/wiki/Q5156948","display_name":"Comprehension","level":2,"score":0.4762187898159027},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.44353216886520386},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4295901656150818},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.37033212184906006},{"id":"https://openalex.org/C195807954","wikidata":"https://www.wikidata.org/wiki/Q1662562","display_name":"Information extraction","level":2,"score":0.359076589345932},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.1920788288116455},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","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":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","is_major_topic":true},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":"Q000000981","qualifier_name":"diagnostic imaging","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":"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":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009488","descriptor_name":"Neurosciences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D063132","descriptor_name":"Connectome","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae648","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/12/btae648/61023856/btae648.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39656949","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39656949","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11631446","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11631446","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11631446/pdf/btae648.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae648","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae648","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/40/12/btae648/61023856/btae648.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","score":0.7300000190734863,"display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G3852078645","display_name":null,"funder_award_id":"STI2030","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7133812622","display_name":null,"funder_award_id":"T2122015","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4405387240.pdf","grobid_xml":"https://content.openalex.org/works/W4405387240.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1498975562","https://openalex.org/W1974565082","https://openalex.org/W1975389666","https://openalex.org/W1986017913","https://openalex.org/W2069755236","https://openalex.org/W2096743836","https://openalex.org/W2121887640","https://openalex.org/W2126122334","https://openalex.org/W2139609609","https://openalex.org/W2396881363","https://openalex.org/W2521317510","https://openalex.org/W2765959523","https://openalex.org/W2896926617","https://openalex.org/W2897782208","https://openalex.org/W2911489562","https://openalex.org/W2946690328","https://openalex.org/W2963339489","https://openalex.org/W3007807538","https://openalex.org/W3046375318","https://openalex.org/W4239678514","https://openalex.org/W4243074427","https://openalex.org/W4297253404","https://openalex.org/W4389670228","https://openalex.org/W6781031682"],"related_works":["https://openalex.org/W4361865679","https://openalex.org/W3198767546","https://openalex.org/W842810586","https://openalex.org/W4319940250","https://openalex.org/W2352298027","https://openalex.org/W2092919065","https://openalex.org/W3138801416","https://openalex.org/W4236762297","https://openalex.org/W2444550338","https://openalex.org/W2169232658"],"abstract_inverted_index":{"MOTIVATION:":[0],"Neuroscientists":[1],"have":[2,40],"long":[3],"endeavored":[4],"to":[5,19,26,173,205],"map":[6],"brain":[7,14,54,71,123,178,214,220],"connectivity,":[8,55],"yet":[9],"the":[10,42,57,67,127],"intricate":[11],"nature":[12],"of":[13,44,48,59,70,129,144,219],"networks":[15],"often":[16],"leads":[17],"them":[18],"concentrate":[20],"on":[21,102],"specific":[22,223],"regions,":[23,124,215],"hindering":[24],"efforts":[25],"unveil":[27],"a":[28,45,78,97,186],"comprehensive":[29],"connectivity":[30,61,75,153,221],"map.":[31],"Recent":[32],"advancements":[33],"in":[34,88,136,222],"imaging":[35],"and":[36,74,85,106,121,133,147,156,167,180,192,229,236],"text":[37],"mining":[38],"techniques":[39],"enabled":[41],"accumulation":[43],"vast":[46],"body":[47],"literature":[49],"containing":[50],"valuable":[51],"insights":[52],"into":[53],"facilitating":[56],"extraction":[58,135],"whole-brain":[60],"relations":[62,76,184],"from":[63,185],"this":[64],"corpus.":[65],"However,":[66],"diverse":[68],"representations":[69],"region":[72],"names":[73],"pose":[77],"challenge":[79],"for":[80,119,149],"conventional":[81],"machine":[82],"learning":[83],"methods":[84],"dictionary-based":[86],"approaches":[87],"identifying":[89],"all":[90],"instances":[91],"accurately.":[92],"RESULTS:":[93],"We":[94],"propose":[95],"BioSEPBERT,":[96],"biomedical":[98],"pre-trained":[99],"model":[100,111,202],"based":[101],"start-end":[103],"position":[104],"pointers":[105],"BERT.":[107],"In":[108],"addition,":[109],"our":[110,201],"integrates":[112],"specialized":[113],"identifiers":[114],"with":[115],"enhanced":[116],"self-attention":[117],"capabilities":[118],"preceding":[120],"succeeding":[122],"thereby":[125,216],"improving":[126],"performance":[128],"named":[130,150],"entity":[131,151],"recognition":[132],"relation":[134,154,158],"neuroscience.":[137],"Our":[138],"approach":[139],"achieves":[140],"optimal":[141],"F1":[142],"scores":[143],"85.0%,":[145],"86.6%,":[146],"86.5%":[148],"recognition,":[152],"extraction,":[155,159],"directional":[157,183],"respectively,":[160],"surpassing":[161],"state-of-the-art":[162],"models":[163],"by":[164],"2.6%,":[165],"1.1%,":[166],"1.1%.":[168],"Furthermore,":[169],"we":[170],"leverage":[171],"BioSEPBERT":[172],"extract":[174],"22.6":[175],"million":[176,190],"standardized":[177],"regions":[179],"165":[181],"072":[182],"corpus":[187],"comprising":[188],"1.3":[189],"abstracts":[191],"193":[193],"100":[194],"full-text":[195],"articles.":[196],"The":[197],"results":[198],"demonstrate":[199],"that":[200],"facilitates":[203],"researchers":[204],"rapidly":[206],"acquire":[207],"knowledge":[208],"regarding":[209],"neural":[210],"circuits":[211],"across":[212],"various":[213],"enhancing":[217],"comprehension":[218],"regions.":[224],"AVAILABILITY":[225],"AND":[226],"IMPLEMENTATION:":[227],"Data":[228],"source":[230],"code":[231],"are":[232],"available":[233],"at:":[234],"http://atlas.brainsmatics.org/res/BioSEPBERT":[235],"https://github.com/Brainsmatics/BioSEPBERT.":[237]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-08-05T07:39:15.569665","created_date":"2025-10-10T00:00:00"}