{"id":"https://openalex.org/W4412654252","doi":"https://doi.org/10.1093/bib/bbaf349","title":"GRANet: a graph residual attention network for gene regulatory network inference","display_name":"GRANet: a graph residual attention network for gene regulatory network inference","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412654252","doi":"https://doi.org/10.1093/bib/bbaf349","pmid":"https://pubmed.ncbi.nlm.nih.gov/40708222"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf349","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/bbaf349","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5108867995","display_name":"Junliang Zhou","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":false,"raw_author_name":"Junliang Zhou","raw_affiliation_strings":["School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","institution_ids":["https://openalex.org/I10535382"]},{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103133834","display_name":"Ningji Gong","orcid":null},"institutions":[{"id":"https://openalex.org/I4210103957","display_name":"Second Hospital of Shandong University","ror":"https://ror.org/01fd86n56","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210103957"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ningji Gong","raw_affiliation_strings":["Department of Emergency, The Second Hospital, Cheeloo College of Medicine, Shandong University , No. 247 Beiyuan Street, Tianqiao District, Jinan 250033, Shandong ,","Department of Emergency, The Second Hospital, Cheeloo College of Medicine, Shandong University, No. 247 Beiyuan Street, Tianqiao District, Jinan 250033, Shandong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Emergency, The Second Hospital, Cheeloo College of Medicine, Shandong University , No. 247 Beiyuan Street, Tianqiao District, Jinan 250033, Shandong ,","institution_ids":["https://openalex.org/I4210103957"]},{"raw_affiliation_string":"Department of Emergency, The Second Hospital, Cheeloo College of Medicine, Shandong University, No. 247 Beiyuan Street, Tianqiao District, Jinan 250033, Shandong, China","institution_ids":["https://openalex.org/I4210103957"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101502141","display_name":"Yanjun Hu","orcid":"https://orcid.org/0000-0002-6319-176X"},"institutions":[{"id":"https://openalex.org/I28006308","display_name":"Shandong Normal University","ror":"https://ror.org/01wy3h363","country_code":"CN","type":"education","lineage":["https://openalex.org/I28006308"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yanjun Hu","raw_affiliation_strings":["Library, Shandong Normal University , No. 1 University Road, University Science Park, Changqing District, Jinan 250100, Shandong ,","Library, Shandong Normal University, No. 1 University Road, University Science Park, Changqing District, Jinan 250100, Shandong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Library, Shandong Normal University , No. 1 University Road, University Science Park, Changqing District, Jinan 250100, Shandong ,","institution_ids":["https://openalex.org/I28006308"]},{"raw_affiliation_string":"Library, Shandong Normal University, No. 1 University Road, University Science Park, Changqing District, Jinan 250100, Shandong, China","institution_ids":["https://openalex.org/I28006308"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003746498","display_name":"Hong Yu","orcid":"https://orcid.org/0000-0003-0667-8413"},"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":"Hong Yu","raw_affiliation_strings":["School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","institution_ids":["https://openalex.org/I10535382"]},{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031220156","display_name":"Guoyin Wang","orcid":"https://orcid.org/0000-0002-8521-5232"},"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"]},{"id":"https://openalex.org/I126924076","display_name":"Chongqing Normal University","ror":"https://ror.org/01dcw5w74","country_code":"CN","type":"education","lineage":["https://openalex.org/I126924076"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guoyin Wang","raw_affiliation_strings":["National Center for Applied Mathematics in Chongqing, Chongqing Normal University , No. 37, Daxuecheng Middle Road, Shapingba District, Chongqing 401331 ,","School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","National Center for Applied Mathematics in Chongqing, Chongqing Normal University, No. 37, Daxuecheng Middle Road, Shapingba District, Chongqing 401331, China","School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Applied Mathematics in Chongqing, Chongqing Normal University , No. 37, Daxuecheng Middle Road, Shapingba District, Chongqing 401331 ,","institution_ids":["https://openalex.org/I126924076"]},{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","institution_ids":["https://openalex.org/I10535382"]},{"raw_affiliation_string":"National Center for Applied Mathematics in Chongqing, Chongqing Normal University, No. 37, Daxuecheng Middle Road, Shapingba District, Chongqing 401331, China","institution_ids":["https://openalex.org/I126924076"]},{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China","institution_ids":["https://openalex.org/I10535382"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036176693","display_name":"Hao Wu","orcid":"https://orcid.org/0000-0003-2340-9258"},"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"]},{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hao Wu","raw_affiliation_strings":["School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","School of Software, Shandong University , No. 1500, Shunhua Road, High tech Zone, Jinan 250100, Shandong ,","School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China","School of Software, Shandong University, No. 1500, Shunhua Road, High tech Zone, Jinan 250100, Shandong, China"],"raw_orcid":"https://orcid.org/0000-0003-2340-9258","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications , No. 2 Chongwen Road, Nan'an District, Chongqing 400065 ,","institution_ids":["https://openalex.org/I10535382"]},{"raw_affiliation_string":"School of Software, Shandong University , No. 1500, Shunhua Road, High tech Zone, Jinan 250100, Shandong ,","institution_ids":["https://openalex.org/I154099455"]},{"raw_affiliation_string":"School of Computer Science and Technology, Chongqing University of Posts and Telecommunications, No. 2 Chongwen Road, Nan'an District, Chongqing 400065, China","institution_ids":["https://openalex.org/I10535382"]},{"raw_affiliation_string":"School of Software, Shandong University, No. 1500, Shunhua Road, High tech Zone, Jinan 250100, Shandong, China","institution_ids":["https://openalex.org/I154099455"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":4.3693,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.94807223,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":100},"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9993000030517578,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9993000030517578,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9976999759674072,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9916999936103821,"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/inference","display_name":"Inference","score":0.8003694415092468},{"id":"https://openalex.org/keywords/residual","display_name":"Residual","score":0.709642231464386},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6682995557785034},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.617773175239563},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5922178030014038},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3691611588001251},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3470688462257385},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.314548134803772},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.23775392770767212},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1784195601940155},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16276055574417114},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.1518782079219818},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.08684089779853821}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.8003694415092468},{"id":"https://openalex.org/C155512373","wikidata":"https://www.wikidata.org/wiki/Q287450","display_name":"Residual","level":2,"score":0.709642231464386},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6682995557785034},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.617773175239563},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5922178030014038},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3691611588001251},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3470688462257385},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.314548134803772},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.23775392770767212},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1784195601940155},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16276055574417114},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.1518782079219818},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08684089779853821}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep 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":"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":"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":"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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D051766","descriptor_name":"Early Growth Response Protein 1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051766","descriptor_name":"Early Growth Response Protein 1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051766","descriptor_name":"Early Growth Response Protein 1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051766","descriptor_name":"Early Growth Response Protein 1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf349","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40708222","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40708222","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:12289554","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12289554","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/bbaf349","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf349","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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.4300000071525574}],"awards":[{"id":"https://openalex.org/G2698802062","display_name":null,"funder_award_id":"2021YFF0704103","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G3278557419","display_name":null,"funder_award_id":"62272278","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3993791164","display_name":null,"funder_award_id":"2024A1515012775","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G715904284","display_name":"\u4e09\u7ef4\u57fa\u56e0\u7ec4\u8c03\u63a7\u5c42\u9762\u7684\u764c\u75c7\u81f4\u75c5\u901a\u8def\u6316\u6398\u65b9\u6cd5\u7814\u7a76","funder_award_id":"61972322","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"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null},{"id":"https://openalex.org/F4320337111","display_name":"Basic and Applied Basic Research Foundation of Guangdong Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":63,"referenced_works":["https://openalex.org/W1976526581","https://openalex.org/W1992508898","https://openalex.org/W2016060560","https://openalex.org/W2061425021","https://openalex.org/W2072054371","https://openalex.org/W2076513103","https://openalex.org/W2087367550","https://openalex.org/W2126750365","https://openalex.org/W2148143831","https://openalex.org/W2155653793","https://openalex.org/W2160304959","https://openalex.org/W2163480486","https://openalex.org/W2175370850","https://openalex.org/W2396849069","https://openalex.org/W2611138580","https://openalex.org/W2743416243","https://openalex.org/W2782454362","https://openalex.org/W2900310474","https://openalex.org/W2900569176","https://openalex.org/W2907492528","https://openalex.org/W2948978827","https://openalex.org/W2951424836","https://openalex.org/W2951850020","https://openalex.org/W2952535935","https://openalex.org/W2964315448","https://openalex.org/W2969996838","https://openalex.org/W2977973695","https://openalex.org/W2996140569","https://openalex.org/W2997831639","https://openalex.org/W3003776092","https://openalex.org/W3023371261","https://openalex.org/W3045910546","https://openalex.org/W3106379731","https://openalex.org/W3186348651","https://openalex.org/W3201642687","https://openalex.org/W4206994921","https://openalex.org/W4210257598","https://openalex.org/W4210880116","https://openalex.org/W4239546189","https://openalex.org/W4253802431","https://openalex.org/W4290930137","https://openalex.org/W4292722723","https://openalex.org/W4296746241","https://openalex.org/W4297257598","https://openalex.org/W4297457819","https://openalex.org/W4297733535","https://openalex.org/W4319762935","https://openalex.org/W4366464224","https://openalex.org/W4366498340","https://openalex.org/W4366726969","https://openalex.org/W4383113554","https://openalex.org/W4386699707","https://openalex.org/W4387682146","https://openalex.org/W4390116356","https://openalex.org/W4391126196","https://openalex.org/W4392874548","https://openalex.org/W4392934845","https://openalex.org/W4394748840","https://openalex.org/W4399571068","https://openalex.org/W4400603735","https://openalex.org/W4401165138","https://openalex.org/W6745537798","https://openalex.org/W6772764540"],"related_works":["https://openalex.org/W2560215812","https://openalex.org/W2949601986","https://openalex.org/W2788972299","https://openalex.org/W2521347458","https://openalex.org/W2950199998","https://openalex.org/W2560421304","https://openalex.org/W4300237897","https://openalex.org/W2951387065","https://openalex.org/W4385727351","https://openalex.org/W4306798985"],"abstract_inverted_index":{"The":[0,130],"reconstruction":[1],"of":[2,19],"gene":[3,20,51,104,177],"regulatory":[4,11,105,166],"networks":[5],"(GRNs)":[6],"is":[7],"crucial":[8],"for":[9,92,112],"uncovering":[10],"relationships":[12,106],"between":[13],"genes":[14],"and":[15,76,153,164,179],"understanding":[16],"the":[17,39],"mechanisms":[18,99],"expression":[21],"within":[22],"cells.":[23],"With":[24],"advancements":[25],"in":[26,140,146,176],"single-cell":[27,40],"RNA":[28],"sequencing":[29],"(scRNA-seq)":[30],"technology,":[31],"researchers":[32],"have":[33],"sought":[34],"to":[35,57,68,100,173],"infer":[36],"GRNs":[37],"at":[38],"level.":[41],"However,":[42],"existing":[43,138],"methods":[44,139],"primarily":[45],"construct":[46],"global":[47],"models":[48],"encompassing":[49],"entire":[50],"networks.":[52],"While":[53],"these":[54],"approaches":[55],"aim":[56],"capture":[58],"genome-wide":[59],"interactions,":[60],"they":[61],"frequently":[62],"suffer":[63],"from":[64],"decreased":[65],"accuracy":[66],"due":[67],"challenges":[69],"such":[70],"as":[71],"network":[72],"scale,":[73],"noise":[74],"interference,":[75],"data":[77],"sparsity.":[78],"This":[79],"study":[80,149],"proposes":[81],"GRANet":[82,95,120,135,155],"(Graph":[83],"Residual":[84],"Attention":[85],"Network),":[86],"a":[87,113],"novel":[88,165],"deep":[89],"learning":[90],"framework":[91],"inferring":[93],"GRNs.":[94],"leverages":[96],"residual":[97],"attention":[98],"adaptively":[101],"learn":[102],"complex":[103],"while":[107],"integrating":[108],"multi-dimensional":[109],"biological":[110],"features":[111],"more":[114],"comprehensive":[115],"inference":[116,142],"process.":[117],"We":[118],"evaluated":[119],"across":[121],"multiple":[122],"datasets,":[123],"benchmarking":[124],"its":[125],"performance":[126],"against":[127],"state-of-the-art":[128],"methods.":[129],"experimental":[131],"results":[132],"demonstrate":[133],"that":[134],"consistently":[136],"outperforms":[137],"GRN":[141],"tasks.":[143],"In":[144],"addition,":[145],"our":[147],"case":[148],"on":[150],"EGR1,":[151],"CBFB,":[152],"ELF1,":[154],"achieved":[156],"high":[157],"prediction":[158],"accuracy,":[159],"effectively":[160],"identifying":[161],"both":[162],"known":[163],"interactions.":[167],"These":[168],"findings":[169],"highlight":[170],"GRANet's":[171],"potential":[172],"advance":[174],"research":[175],"regulation":[178],"disease":[180],"mechanisms.":[181]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":2}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
