{"id":"https://openalex.org/W4411870113","doi":"https://doi.org/10.1093/gpbjnl/qzaf056","title":"LEGEND: Identifying Co-expressed Genes in Multimodal Transcriptomic Sequencing Data","display_name":"LEGEND: Identifying Co-expressed Genes in Multimodal Transcriptomic Sequencing Data","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4411870113","doi":"https://doi.org/10.1093/gpbjnl/qzaf056","pmid":"https://pubmed.ncbi.nlm.nih.gov/40591483"},"language":"en","primary_location":{"id":"doi:10.1093/gpbjnl/qzaf056","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzaf056","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzaf056/63637477/qzaf056.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; 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/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzaf056/63637477/qzaf056.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059523099","display_name":"Tao Deng","orcid":"https://orcid.org/0000-0001-7401-311X"},"institutions":[{"id":"https://openalex.org/I4210099586","display_name":"Shenzhen Research Institute of Big Data","ror":"https://ror.org/00z1gwf89","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210099586"]},{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tao Deng","raw_affiliation_strings":["School of Data Science, The Chinese University of Hong Kong, Shenzhen (CUHK-Shenzhen) , Shenzhen 518172,","Shenzhen Research Institute of Big Data , Shenzhen 518172,","The Chinese University of Hong Kong, Shenzhen (CUHK-Shenzhen) School of Data Science, , Shenzhen 518172,"],"raw_orcid":"https://orcid.org/0000-0001-7401-311X","affiliations":[{"raw_affiliation_string":"School of Data Science, The Chinese University of Hong Kong, Shenzhen (CUHK-Shenzhen) , Shenzhen 518172,","institution_ids":["https://openalex.org/I4210116924"]},{"raw_affiliation_string":"Shenzhen Research Institute of Big Data , Shenzhen 518172,","institution_ids":["https://openalex.org/I4210099586"]},{"raw_affiliation_string":"The Chinese University of Hong Kong, Shenzhen (CUHK-Shenzhen) School of Data Science, , Shenzhen 518172,","institution_ids":["https://openalex.org/I4210116924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111907751","display_name":"Mengqian Huang","orcid":"https://orcid.org/0009-0003-6440-0601"},"institutions":[{"id":"https://openalex.org/I158934434","display_name":"Zhongnan University of Economics and Law","ror":"https://ror.org/04yqxxq63","country_code":"CN","type":"education","lineage":["https://openalex.org/I158934434"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mengqian Huang","raw_affiliation_strings":["School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,"],"raw_orcid":"https://orcid.org/0009-0003-6440-0601","affiliations":[{"raw_affiliation_string":"School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]},{"raw_affiliation_string":"Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022227779","display_name":"Kaichen Xu","orcid":"https://orcid.org/0009-0001-1768-1303"},"institutions":[{"id":"https://openalex.org/I158934434","display_name":"Zhongnan University of Economics and Law","ror":"https://ror.org/04yqxxq63","country_code":"CN","type":"education","lineage":["https://openalex.org/I158934434"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kaichen Xu","raw_affiliation_strings":["School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,"],"raw_orcid":"https://orcid.org/0009-0001-1768-1303","affiliations":[{"raw_affiliation_string":"School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]},{"raw_affiliation_string":"Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022128301","display_name":"Yan Lu","orcid":"https://orcid.org/0009-0006-6492-2321"},"institutions":[{"id":"https://openalex.org/I158934434","display_name":"Zhongnan University of Economics and Law","ror":"https://ror.org/04yqxxq63","country_code":"CN","type":"education","lineage":["https://openalex.org/I158934434"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Lu","raw_affiliation_strings":["School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,"],"raw_orcid":"https://orcid.org/0009-0006-6492-2321","affiliations":[{"raw_affiliation_string":"School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]},{"raw_affiliation_string":"Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101286883","display_name":"Yucheng Xu","orcid":"https://orcid.org/0009-0004-9552-4305"},"institutions":[{"id":"https://openalex.org/I205237279","display_name":"Nankai University","ror":"https://ror.org/01y1kjr75","country_code":"CN","type":"education","lineage":["https://openalex.org/I205237279"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yucheng Xu","raw_affiliation_strings":["School of Statistics and Data Science, Nankai University , Tianjin 300071,","Nankai University School of Statistics and Data Science, , Tianjin 300071,"],"raw_orcid":"https://orcid.org/0009-0004-9552-4305","affiliations":[{"raw_affiliation_string":"School of Statistics and Data Science, Nankai University , Tianjin 300071,","institution_ids":["https://openalex.org/I205237279"]},{"raw_affiliation_string":"Nankai University School of Statistics and Data Science, , Tianjin 300071,","institution_ids":["https://openalex.org/I205237279"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042336372","display_name":"Siyu Chen","orcid":"https://orcid.org/0000-0002-2662-2858"},"institutions":[{"id":"https://openalex.org/I158934434","display_name":"Zhongnan University of Economics and Law","ror":"https://ror.org/04yqxxq63","country_code":"CN","type":"education","lineage":["https://openalex.org/I158934434"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Siyu Chen","raw_affiliation_strings":["School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,"],"raw_orcid":"https://orcid.org/0000-0002-2662-2858","affiliations":[{"raw_affiliation_string":"School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]},{"raw_affiliation_string":"Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071955765","display_name":"Nina Xie","orcid":"https://orcid.org/0000-0001-8405-9576"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210126592","display_name":"National Clinical Research","ror":"https://ror.org/03ddkvp86","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210126592"]},{"id":"https://openalex.org/I4210159865","display_name":"Xiangya Hospital Central South University","ror":"https://ror.org/05c1yfj14","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159865"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Nina Xie","raw_affiliation_strings":["Department of Geriatric Neurology, Xiangya Hospital, Central South University , Changsha 410008,","National Clinical Research Center for Geriatric Disorders , Changsha 410078,","Xiangya Hospital, Central South University Department of Geriatric Neurology, , Changsha 410008,"],"raw_orcid":"https://orcid.org/0000-0001-8405-9576","affiliations":[{"raw_affiliation_string":"Department of Geriatric Neurology, Xiangya Hospital, Central South University , Changsha 410008,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210159865"]},{"raw_affiliation_string":"National Clinical Research Center for Geriatric Disorders , Changsha 410078,","institution_ids":["https://openalex.org/I4210126592"]},{"raw_affiliation_string":"Xiangya Hospital, Central South University Department of Geriatric Neurology, , Changsha 410008,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210159865"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Qiuyue Tao","orcid":"https://orcid.org/0009-0004-0273-7417"},"institutions":[{"id":"https://openalex.org/I158934434","display_name":"Zhongnan University of Economics and Law","ror":"https://ror.org/04yqxxq63","country_code":"CN","type":"education","lineage":["https://openalex.org/I158934434"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiuyue Tao","raw_affiliation_strings":["School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,"],"raw_orcid":"https://orcid.org/0009-0004-0273-7417","affiliations":[{"raw_affiliation_string":"School of Statistics and Mathematics, Zhongnan University of Economics and Law , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]},{"raw_affiliation_string":"Zhongnan University of Economics and Law School of Statistics and Mathematics, , Wuhan 430073,","institution_ids":["https://openalex.org/I158934434"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083170497","display_name":"Hao Wu","orcid":"https://orcid.org/0000-0003-1269-7354"},"institutions":[{"id":"https://openalex.org/I180726961","display_name":"Shenzhen University","ror":"https://ror.org/01vy4gh70","country_code":"CN","type":"education","lineage":["https://openalex.org/I180726961"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210145761","display_name":"Shenzhen Institutes of Advanced Technology","ror":"https://ror.org/04gh4er46","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210145761"]},{"id":"https://openalex.org/I4210152380","display_name":"Shenzhen Technology University","ror":"https://ror.org/04qzpec27","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210152380"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hao Wu","raw_affiliation_strings":["Faculty of Computer Science and Control Engineering, Shenzhen University of Advanced Technology , Shenzhen 518055,","Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences , Shenzhen 518055,","Shenzhen University of Advanced Technology Faculty of Computer Science and Control Engineering, , Shenzhen 518055,","Chinese Academy of Sciences Shenzhen Institute of Advanced Technology, , Shenzhen 518055,"],"raw_orcid":"https://orcid.org/0000-0003-1269-7354","affiliations":[{"raw_affiliation_string":"Faculty of Computer Science and Control Engineering, Shenzhen University of Advanced Technology , Shenzhen 518055,","institution_ids":["https://openalex.org/I180726961","https://openalex.org/I4210152380"]},{"raw_affiliation_string":"Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences , Shenzhen 518055,","institution_ids":["https://openalex.org/I4210145761"]},{"raw_affiliation_string":"Shenzhen University of Advanced Technology Faculty of Computer Science and Control Engineering, , Shenzhen 518055,","institution_ids":["https://openalex.org/I180726961","https://openalex.org/I4210152380"]},{"raw_affiliation_string":"Chinese Academy of Sciences Shenzhen Institute of Advanced Technology, , Shenzhen 518055,","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210145761"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065527238","display_name":"Xiaobo Sun","orcid":"https://orcid.org/0000-0001-9876-5666"},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaobo Sun","raw_affiliation_strings":["Department of Human Genetics, Emory University , Atlanta, GA 30322,","Emory University Department of Human Genetics, , Atlanta, GA 30322,"],"raw_orcid":"https://orcid.org/0000-0001-9876-5666","affiliations":[{"raw_affiliation_string":"Department of Human Genetics, Emory University , Atlanta, GA 30322,","institution_ids":["https://openalex.org/I150468666"]},{"raw_affiliation_string":"Emory University Department of Human Genetics, , Atlanta, GA 30322,","institution_ids":["https://openalex.org/I150468666"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":12,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3650,"currency":"USD","value_usd":3650},"apc_paid":{"value":3650,"currency":"USD","value_usd":3650},"fwci":3.3739,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.92859344,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"23","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9814000129699707,"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":0.9527000188827515,"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/gene","display_name":"Gene","score":0.6524114012718201},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5968139171600342},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5234094262123108},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.4866228997707367},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.4817202687263489},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.42265427112579346},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3852892816066742},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.35641252994537354},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3089459538459778},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16009142994880676}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6524114012718201},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5968139171600342},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5234094262123108},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.4866228997707367},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.4817202687263489},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.42265427112579346},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3852892816066742},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.35641252994537354},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3089459538459778},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16009142994880676}],"mesh":[{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/gpbjnl/qzaf056","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzaf056","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzaf056/63637477/qzaf056.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40591483","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40591483","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":"Genomics, proteomics & bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12715406","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12715406/","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Genomics Proteomics Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/gpbjnl/qzaf056","is_oa":true,"landing_page_url":"https://doi.org/10.1093/gpbjnl/qzaf056","pdf_url":"https://academic.oup.com/gpb/advance-article-pdf/doi/10.1093/gpbjnl/qzaf056/63637477/qzaf056.pdf","source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G202878624","display_name":null,"funder_award_id":"82101946","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":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4411870113.pdf"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W151377110","https://openalex.org/W2006896953","https://openalex.org/W2051224630","https://openalex.org/W2073656988","https://openalex.org/W2131114385","https://openalex.org/W2291645046","https://openalex.org/W2782454362","https://openalex.org/W2791285756","https://openalex.org/W2799806393","https://openalex.org/W2800392236","https://openalex.org/W2906625258","https://openalex.org/W2950976066","https://openalex.org/W2952588534","https://openalex.org/W2952631022","https://openalex.org/W2953036966","https://openalex.org/W2998299177","https://openalex.org/W3001833132","https://openalex.org/W3004640473","https://openalex.org/W3006474680","https://openalex.org/W3014540555","https://openalex.org/W3042292144","https://openalex.org/W3042981350","https://openalex.org/W3043793790","https://openalex.org/W3087821509","https://openalex.org/W3097029961","https://openalex.org/W3097529560","https://openalex.org/W3108118546","https://openalex.org/W3126958162","https://openalex.org/W3134482219","https://openalex.org/W3154998545","https://openalex.org/W3181253984","https://openalex.org/W3195296048","https://openalex.org/W3195446985","https://openalex.org/W3198511950","https://openalex.org/W4200404717","https://openalex.org/W4205428105","https://openalex.org/W4205817967","https://openalex.org/W4224059281","https://openalex.org/W4312128822","https://openalex.org/W4313583383","https://openalex.org/W4319454349","https://openalex.org/W4324100576","https://openalex.org/W4378212544","https://openalex.org/W4385752307","https://openalex.org/W4390885355","https://openalex.org/W4391899506"],"related_works":["https://openalex.org/W4394359997","https://openalex.org/W4362511652","https://openalex.org/W4362511917","https://openalex.org/W4362511922","https://openalex.org/W4362485688","https://openalex.org/W4362530184","https://openalex.org/W4362530193","https://openalex.org/W2904597490","https://openalex.org/W4362485661","https://openalex.org/W4394365953"],"abstract_inverted_index":{"Identifying":[0],"co-expressed":[1,53,81],"genes":[2,14,82,182],"across":[3],"tissue":[4,88],"domains":[5],"and":[6,27,74,87,103,114,118,130,169,174],"cell":[7,85],"types":[8],"is":[9,189],"essential":[10],"for":[11,77,180],"revealing":[12],"co-functional":[13],"involved":[15],"in":[16,133,144,167,172],"biological":[17,124],"or":[18],"pathological":[19],"processes.":[20],"While":[21],"both":[22,84,164],"single-cell":[23],"RNA":[24],"sequencing":[25],"(scRNA-seq)":[26],"spatially":[28],"resolved":[29],"transcriptomics":[30],"(SRT)":[31],"data":[32,44,76],"offer":[33],"insights":[34,151],"into":[35,152],"gene":[36,54,112,128,137,154],"co-expression":[37,113],"patterns,":[38],"current":[39],"methods":[40],"typically":[41],"utilize":[42],"either":[43],"type":[45,86],"alone,":[46],"potentially":[47],"diluting":[48],"the":[49,123,160],"co-functionality":[50],"signals":[51],"within":[52],"groups.":[55],"To":[56],"bridge":[57],"this":[58],"gap,":[59],"we":[60],"introduce":[61],"muLtimodal":[62],"co-Expressed":[63],"GENes":[64],"finDer":[65],"(LEGEND),":[66],"a":[67,177],"novel":[68,136],"computational":[69],"method":[70],"that":[71],"integrates":[72],"scRNA-seq":[73],"SRT":[75,168],"identifying":[78,181],"groups":[79],"of":[80,111,126,163],"at":[83,191],"domain":[89],"levels.":[90],"LEGEND":[91,140,157,188],"employs":[92],"an":[93],"innovative":[94],"hierarchical":[95],"clustering":[96],"algorithm":[97],"designed":[98],"to":[99],"maximize":[100],"intra-cluster":[101],"redundancy":[102],"inter-cluster":[104],"complementarity,":[105],"effectively":[106],"capturing":[107],"more":[108],"nuanced":[109],"patterns":[110],"spatial":[115,165,185],"coherence.":[116],"Enrichment":[117],"co-function":[119],"analyses":[120],"further":[121],"showcase":[122],"relevance":[125],"these":[127],"clusters":[129],"their":[131],"utilities":[132],"exploring":[134],"context-specific":[135],"functions.":[138],"Notably,":[139],"can":[141,158],"reveal":[142],"shifts":[143],"gene-gene":[145],"interactions":[146],"under":[147],"different":[148],"conditions,":[149],"providing":[150],"disease-associated":[153],"crosstalk.":[155],"Moreover,":[156],"enhance":[159],"annotation":[161],"accuracy":[162],"spots":[166],"single":[170],"cells":[171],"scRNA-seq,":[173],"serve":[175],"as":[176],"pioneering":[178],"tool":[179],"with":[183],"designated":[184],"expression":[186],"patterns.":[187],"available":[190],"https://github.com/ToryDeng/LEGEND.":[192]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":3}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
