{"id":"https://openalex.org/W4412169613","doi":"https://doi.org/10.1093/bib/bbaf312","title":"A data-intelligence-intensive bioinformatics copilot system for large-scale omics research and scientific insights","display_name":"A data-intelligence-intensive bioinformatics copilot system for large-scale omics research and scientific insights","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412169613","doi":"https://doi.org/10.1093/bib/bbaf312","pmid":"https://pubmed.ncbi.nlm.nih.gov/40639418"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf312","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf312","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbaf312","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100355920","display_name":"Yang Liu","orcid":"https://orcid.org/0000-0002-5221-7725"},"institutions":[{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yang Liu","raw_affiliation_strings":["Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111207237","display_name":"Rongbo Shen","orcid":null},"institutions":[{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rongbo Shen","raw_affiliation_strings":["Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054561327","display_name":"Lu Zhou","orcid":"https://orcid.org/0000-0002-0453-9965"},"institutions":[{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lu Zhou","raw_affiliation_strings":["Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061622674","display_name":"Qingyu Xiao","orcid":"https://orcid.org/0000-0001-8004-0843"},"institutions":[{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingyu Xiao","raw_affiliation_strings":["Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039714756","display_name":"Jiao Yuan","orcid":"https://orcid.org/0000-0003-2597-2319"},"institutions":[{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiao Yuan","raw_affiliation_strings":["Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5008280608","display_name":"Yixue Li","orcid":"https://orcid.org/0000-0002-1198-7176"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210090512","display_name":"Guangzhou Experimental Station","ror":"https://ror.org/00f2c2516","country_code":"CN","type":"facility","lineage":["https://openalex.org/I107851509","https://openalex.org/I4210090512","https://openalex.org/I4210127390","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210096013","display_name":"Shanghai Institute of Nutrition and Health","ror":"https://ror.org/00rytkh49","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210096013"]},{"id":"https://openalex.org/I4210107815","display_name":"Guangdong-Hongkong-Macau Joint Laboratory of Collaborative Innovation for Environmental Quality","ror":"https://ror.org/02gwsx029","country_code":"CN","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I159948400","https://openalex.org/I200769079","https://openalex.org/I4210107815","https://openalex.org/I4210144285","https://openalex.org/I4391767947"]},{"id":"https://openalex.org/I4210126939","display_name":"ZheJiang Academy of Agricultural Sciences","ror":"https://ror.org/02qbc3192","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210126939"]},{"id":"https://openalex.org/I4210156571","display_name":"Collaborative Innovation Center of Chemistry for Energy Materials","ror":"https://ror.org/05fdv7d34","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210156571"]},{"id":"https://openalex.org/I4210164195","display_name":"Shanghai Institute of Pharmaceutical Industry","ror":"https://ror.org/05mqm5297","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210164195"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yixue Li","raw_affiliation_strings":["Collaborative Innovation Center for Genetics and Development, Fudan University , Shanghai 200433 ,","Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","Key Laboratory of Systems Health Science of Zhejiang Province, School of Life Science, Hangzhou Institute for Advanced Study, University of the Chinese Academy of Sciences , Hangzhou 310024 ,","School of Life Sciences and Biotechnology, Shanghai Jiao Tong University , Shanghai 200240 ,","Shanghai Institute for Biomedical and Pharmaceutical Technologies , Shanghai 200032 ,","Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences , Shanghai 200030 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Collaborative Innovation Center for Genetics and Development, Fudan University , Shanghai 200433 ,","institution_ids":["https://openalex.org/I4210156571"]},{"raw_affiliation_string":"Guangdong-Hong Kong-Macau Joint Laboratory for Cell Fate Regulation and Diseases, GMU-GIBH Joint School of Life Sciences, Guangzhou Medical University , Guangzhou 511436 ,","institution_ids":["https://openalex.org/I4210107815"]},{"raw_affiliation_string":"Guangzhou National Laboratory , No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005 , Guangdong Province,","institution_ids":["https://openalex.org/I4210090512"]},{"raw_affiliation_string":"Key Laboratory of Systems Health Science of Zhejiang Province, School of Life Science, Hangzhou Institute for Advanced Study, University of the Chinese Academy of Sciences , Hangzhou 310024 ,","institution_ids":["https://openalex.org/I4210126939"]},{"raw_affiliation_string":"School of Life Sciences and Biotechnology, Shanghai Jiao Tong University , Shanghai 200240 ,","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Shanghai Institute for Biomedical and Pharmaceutical Technologies , Shanghai 200032 ,","institution_ids":["https://openalex.org/I4210164195"]},{"raw_affiliation_string":"Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences , Shanghai 200030 ,","institution_ids":["https://openalex.org/I4210096013"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100355920"],"corresponding_institution_ids":["https://openalex.org/I4210090512","https://openalex.org/I4210107815"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":11.4343,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.98161824,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"26","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9836000204086304,"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":0.9836000204086304,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9830999970436096,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.982200026512146,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/computer-science","display_name":"Computer science","score":0.701796293258667},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5074142813682556},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.48365864157676697},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.44731152057647705},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.43289363384246826},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3229479193687439},{"id":"https://openalex.org/keywords/systems-engineering","display_name":"Systems engineering","score":0.19293156266212463},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.1552024781703949},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.12412029504776001}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.701796293258667},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5074142813682556},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.48365864157676697},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.44731152057647705},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.43289363384246826},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3229479193687439},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.19293156266212463},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.1552024781703949},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.12412029504776001},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf312","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf312","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40639418","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40639418","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12245162","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12245162","pdf_url":null,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf312","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf312","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","score":0.4399999976158142,"id":"https://metadata.un.org/sdg/17"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W1988391018","https://openalex.org/W2042210471","https://openalex.org/W2043329626","https://openalex.org/W2058189572","https://openalex.org/W2061680337","https://openalex.org/W2076687510","https://openalex.org/W2087242711","https://openalex.org/W2093065590","https://openalex.org/W2100542429","https://openalex.org/W2105805010","https://openalex.org/W2114477929","https://openalex.org/W2120220258","https://openalex.org/W2211193336","https://openalex.org/W2269040222","https://openalex.org/W2311607323","https://openalex.org/W2345356016","https://openalex.org/W2550535012","https://openalex.org/W2572662684","https://openalex.org/W2612519453","https://openalex.org/W2620147451","https://openalex.org/W2734256217","https://openalex.org/W2768956845","https://openalex.org/W2795843265","https://openalex.org/W2885079199","https://openalex.org/W2892221324","https://openalex.org/W2904391628","https://openalex.org/W2908201961","https://openalex.org/W2968995168","https://openalex.org/W3104020727","https://openalex.org/W3104118091","https://openalex.org/W3121168830","https://openalex.org/W3132804543","https://openalex.org/W3145969289","https://openalex.org/W3159800610","https://openalex.org/W3166627873","https://openalex.org/W3200445016","https://openalex.org/W3202717607","https://openalex.org/W3215305793","https://openalex.org/W4214876469","https://openalex.org/W4286449197","https://openalex.org/W4319304408","https://openalex.org/W4321649710","https://openalex.org/W4353112996","https://openalex.org/W4362515116","https://openalex.org/W4379879135","https://openalex.org/W4383737134","https://openalex.org/W4384071683","https://openalex.org/W4384561707","https://openalex.org/W4391103856","https://openalex.org/W4392504765","https://openalex.org/W4393153069","https://openalex.org/W6850886341"],"related_works":["https://openalex.org/W4322629366","https://openalex.org/W2808989540","https://openalex.org/W2397053934","https://openalex.org/W1039292361","https://openalex.org/W2731626691","https://openalex.org/W2551093110","https://openalex.org/W2148016376","https://openalex.org/W4237919137","https://openalex.org/W3184179822","https://openalex.org/W3095362084"],"abstract_inverted_index":{"Advancements":[0],"in":[1,15,72,183,218,239],"high-throughput":[2],"sequencing":[3],"technologies":[4,33],"and":[5,27,41,67,93,120,133,203,244],"artificial":[6],"intelligence":[7,80],"(AI)":[8],"offer":[9],"unprecedented":[10],"opportunities":[11],"for":[12,124],"groundbreaking":[13],"discoveries":[14,243],"bioinformatics":[16,51,140],"research.":[17],"However,":[18],"the":[19,28,98,125,177,197,205,222,229],"challenges":[20],"of":[21,24,31,100,146,200,207,232],"exponential":[22],"growth":[23],"omics":[25,74],"data":[26,38,179],"rapid":[29],"development":[30],"AI":[32,57,136,234],"require":[34],"automated":[35],"big":[36],"biological":[37,219,242],"analysis":[39],"capability":[40],"interdisciplinary":[42,117],"knowledge-driven":[43],"scientific":[44,70],"insight.":[45],"Here,":[46],"we":[47],"propose":[48],"a":[49,115,143,167,184,190],"data-intelligence-intensive":[50],"copilot":[52],"(Bio-Copilot)":[53],"system":[54],"that":[55],"synergizes":[56],"capabilities":[58,99,235],"with":[59,236],"human":[60,94,169],"researchers":[61],"to":[62,165,195,214],"facilitate":[63],"hypothesis-free":[64],"exploratory":[65],"research":[66],"inspire":[68],"novel":[69],"insights":[71],"large-scale":[73,168],"studies.":[75],"Bio-Copilot":[76,130,149,173],"forms":[77],"high-quality":[78],"intensive":[79],"through":[81],"close":[82],"collaboration":[83],"between":[84],"multiple":[85],"agents,":[86],"driven":[87],"by":[88],"large":[89],"language":[90],"models":[91],"(LLMs),":[92],"researchers.":[95],"To":[96],"augment":[97],"Bio-Copilot,":[101],"this":[102,225],"study":[103,186,226],"devises":[104],"an":[105,110],"agent":[106],"group":[107],"management":[108],"strategy,":[109],"effective":[111],"human-agent":[112],"interaction":[113],"mechanism,":[114],"shared":[116],"knowledge":[118,238],"database,":[119],"continuous":[121,198],"learning":[122],"strategies":[123],"agents.":[126],"We":[127],"comprehensively":[128],"compare":[129],"against":[131],"GPT-4o":[132],"several":[134],"leading":[135],"agents":[137],"across":[138,154],"diverse":[139],"tasks,":[141,156],"using":[142],"broad":[144],"range":[145],"evaluation":[147],"metrics.":[148],"achieves":[150],"overall":[151],"state-of-the-art":[152],"performance":[153],"all":[155],"while":[157],"showcasing":[158],"exceptional":[159],"task":[160],"completeness.":[161],"Furthermore,":[162],"on":[163],"application":[164],"constructing":[166],"lung":[170],"cell":[171,209],"atlas,":[172],"not":[174],"only":[175],"reproduces":[176],"intricate":[178],"integration":[180],"process":[181],"detailed":[182],"seminal":[185],"but":[187],"also":[188,227],"introduces":[189],"recursive,":[191],"multilevel":[192],"annotation":[193],"strategy":[194],"capture":[196],"nature":[199],"cellular":[201],"states":[202],"uncovers":[204],"characteristics":[206],"rare":[208],"types,":[210],"highlighting":[211],"its":[212],"potential":[213],"unravel":[215],"hidden":[216],"complexities":[217],"systems.":[220],"Beyond":[221],"technical":[223],"achievements,":[224],"underscores":[228],"profound":[230],"implications":[231],"integrating":[233],"expert":[237],"accelerating":[240],"impactful":[241],"exploring":[245],"uncharted":[246],"territories.":[247]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
