{"id":"https://openalex.org/W4378347133","doi":"https://doi.org/10.1093/bib/bbad177","title":"Integrating massive RNA-seq data to elucidate transcriptome dynamics in <i>Drosophila melanogaster</i>","display_name":"Integrating massive RNA-seq data to elucidate transcriptome dynamics in <i>Drosophila melanogaster</i>","publication_year":2023,"publication_date":"2023-05-25","ids":{"openalex":"https://openalex.org/W4378347133","doi":"https://doi.org/10.1093/bib/bbad177","pmid":"https://pubmed.ncbi.nlm.nih.gov/37232385"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad177","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad177","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad177/50452634/bbad177.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":"bronze","oa_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad177/50452634/bbad177.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060942081","display_name":"Sheng Hu Qian","orcid":"https://orcid.org/0000-0002-6194-3876"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sheng Hu Qian","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080456464","display_name":"Mengwei Shi","orcid":"https://orcid.org/0000-0001-6027-9742"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meng-Wei Shi","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068596239","display_name":"Dan\u2010Yang Wang","orcid":"https://orcid.org/0000-0001-8735-0422"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dan-Yang Wang","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045346418","display_name":"Justin M. Fear","orcid":"https://orcid.org/0000-0002-2732-449X"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210090567","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Justin M Fear","raw_affiliation_strings":["Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100432071","display_name":"Lu Chen","orcid":"https://orcid.org/0000-0002-1083-9729"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lu Chen","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033888130","display_name":"Yi\u2010Xuan Tu","orcid":"https://orcid.org/0000-0003-0769-6410"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yi-Xuan Tu","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115592263","display_name":"Hongshan Liu","orcid":"https://orcid.org/0009-0001-6448-9672"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hong-Shan Liu","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100940677","display_name":"Yuan Zhang","orcid":"https://orcid.org/0009-0003-5998-1544"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuan Zhang","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110981011","display_name":"S. X. Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuai-Jie Zhang","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003909773","display_name":"Shanshan Yu","orcid":"https://orcid.org/0000-0002-3405-2920"},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shan-Shan Yu","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111524142","display_name":"Brian Oliver","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210090567","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Brian Oliver","raw_affiliation_strings":["Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210090567"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057184656","display_name":"Zhen\u2010Xia Chen","orcid":"https://orcid.org/0000-0003-0474-902X"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]},{"id":"https://openalex.org/I4210088191","display_name":"Agricultural Genomics Institute at Shenzhen","ror":"https://ror.org/0066zpp98","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210088191","https://openalex.org/I4210127390","https://openalex.org/I4210138501","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210090567","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210090567"]},{"id":"https://openalex.org/I4210100789","display_name":"Wuhan College","ror":"https://ror.org/01dashf18","country_code":"CN","type":"nonprofit","lineage":["https://openalex.org/I4210100789"]},{"id":"https://openalex.org/I4210138501","display_name":"Chinese Academy of Agricultural Sciences","ror":"https://ror.org/0313jb750","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210127390","https://openalex.org/I4210138501","https://openalex.org/I4210151987"]},{"id":"https://openalex.org/I4210157677","display_name":"Hubei Academy of Agricultural Sciences","ror":"https://ror.org/04qg81z57","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210157677"]}],"countries":["CN","US"],"is_corresponding":true,"raw_author_name":"Zhen-Xia Chen","raw_affiliation_strings":["Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","Huazhong Agricultural University , College of Life Science and Technology, , Wuhan 430070 , China","Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","Hubei Key Laboratory of Agricultural Bioinformatics , College of Life Science and Technology, , Wuhan 430070 , China","Interdisciplinary Sciences Institute, Huazhong Agricultural University , Wuhan 430070 , China","Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA","Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518000 , China","Shenzhen Institute of Nutrition and Health, Huazhong Agricultural University , Shenzhen 518000 , China","Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518000, China","Shenzhen Institute of Nutrition and Health, Huazhong Agricultural University, Shenzhen 518000, China","Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","Hubei Key Laboratory of Agricultural Bioinformatics, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huazhong Agricultural University , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Huazhong Agricultural University , College of Life Science and Technology, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory , College of Biomedicine and Health, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210100789"]},{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics , College of Life Science and Technology, , Wuhan 430070 , China","institution_ids":["https://openalex.org/I4210157677"]},{"raw_affiliation_string":"Interdisciplinary Sciences Institute, Huazhong Agricultural University , Wuhan 430070 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Section of Developmental Genomics, National Institute of Diabetes and Kidney and Digestive Diseases , National Institutes of Health, Bethesda, MD 20892 , USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210090567"]},{"raw_affiliation_string":"Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences , Shenzhen 518000 , China","institution_ids":["https://openalex.org/I4210088191","https://openalex.org/I4210138501"]},{"raw_affiliation_string":"Shenzhen Institute of Nutrition and Health, Huazhong Agricultural University , Shenzhen 518000 , China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518000, China","institution_ids":["https://openalex.org/I4210088191","https://openalex.org/I4210138501"]},{"raw_affiliation_string":"Shenzhen Institute of Nutrition and Health, Huazhong Agricultural University, Shenzhen 518000, China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Hongshan Laboratory, College of Biomedicine and Health, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]},{"raw_affiliation_string":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5057184656","https://openalex.org/A5111524142"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I204823248","https://openalex.org/I4210088191","https://openalex.org/I4210090567","https://openalex.org/I4210100789","https://openalex.org/I4210138501","https://openalex.org/I4210157677"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.4681,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.57690721,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"24","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9965000152587891,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.9961000084877014,"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/drosophila-melanogaster","display_name":"Drosophila melanogaster","score":0.6735492944717407},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.6567274928092957},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.625495970249176},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.5594992637634277},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5438199639320374},{"id":"https://openalex.org/keywords/drosophila","display_name":"Drosophila (subgenus)","score":0.4291081130504608},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.40829336643218994},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3790045976638794},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35035890340805054},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29522377252578735}],"concepts":[{"id":"https://openalex.org/C2780104201","wikidata":"https://www.wikidata.org/wiki/Q130888","display_name":"Drosophila melanogaster","level":3,"score":0.6735492944717407},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.6567274928092957},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.625495970249176},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5594992637634277},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5438199639320374},{"id":"https://openalex.org/C2776041557","wikidata":"https://www.wikidata.org/wiki/Q3715451","display_name":"Drosophila (subgenus)","level":3,"score":0.4291081130504608},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.40829336643218994},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3790045976638794},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35035890340805054},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29522377252578735}],"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":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004330","descriptor_name":"Drosophila","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","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},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbad177","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad177","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad177/50452634/bbad177.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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:37232385","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37232385","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:10505420","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10505420","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10505420/pdf/bbad177.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbad177","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad177","pdf_url":"https://academic.oup.com/bib/advance-article-pdf/doi/10.1093/bib/bbad177/50452634/bbad177.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320324775","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4378347133.pdf","grobid_xml":"https://content.openalex.org/works/W4378347133.grobid-xml"},"referenced_works_count":88,"referenced_works":["https://openalex.org/W1913238940","https://openalex.org/W1995443851","https://openalex.org/W2096525273","https://openalex.org/W2097401587","https://openalex.org/W2098891914","https://openalex.org/W2111281047","https://openalex.org/W2114112529","https://openalex.org/W2130198725","https://openalex.org/W2131160279","https://openalex.org/W2133464819","https://openalex.org/W2135019871","https://openalex.org/W2136430672","https://openalex.org/W2138207763","https://openalex.org/W2147841875","https://openalex.org/W2155697960","https://openalex.org/W2158789637","https://openalex.org/W2167364244","https://openalex.org/W2169353806","https://openalex.org/W2226446765","https://openalex.org/W2432815617","https://openalex.org/W2473895652","https://openalex.org/W2521578313","https://openalex.org/W2530313893","https://openalex.org/W2604078450","https://openalex.org/W2725699257","https://openalex.org/W2765720106","https://openalex.org/W2772773964","https://openalex.org/W2791682377","https://openalex.org/W2803948098","https://openalex.org/W2810754857","https://openalex.org/W2883917672","https://openalex.org/W2888547849","https://openalex.org/W2888903643","https://openalex.org/W2890785325","https://openalex.org/W2893590998","https://openalex.org/W2898999052","https://openalex.org/W2901144895","https://openalex.org/W2903646852","https://openalex.org/W2911922390","https://openalex.org/W2913515420","https://openalex.org/W2919287201","https://openalex.org/W2921723567","https://openalex.org/W2941283951","https://openalex.org/W2949908949","https://openalex.org/W2951850020","https://openalex.org/W2951912016","https://openalex.org/W2952738383","https://openalex.org/W2953106052","https://openalex.org/W2953483328","https://openalex.org/W2964849163","https://openalex.org/W2974750109","https://openalex.org/W2975582237","https://openalex.org/W2986925253","https://openalex.org/W2999615587","https://openalex.org/W3000826358","https://openalex.org/W3005664759","https://openalex.org/W3009288574","https://openalex.org/W3012055802","https://openalex.org/W3036050606","https://openalex.org/W3039187840","https://openalex.org/W3042292144","https://openalex.org/W3089041845","https://openalex.org/W3095038615","https://openalex.org/W3095055153","https://openalex.org/W3115880421","https://openalex.org/W3123980318","https://openalex.org/W3131055609","https://openalex.org/W3133997201","https://openalex.org/W3157922328","https://openalex.org/W3163615957","https://openalex.org/W3164692211","https://openalex.org/W3166400927","https://openalex.org/W3175752499","https://openalex.org/W3215421219","https://openalex.org/W4205247356","https://openalex.org/W4214861448","https://openalex.org/W4220862992","https://openalex.org/W4221113039","https://openalex.org/W4224731120","https://openalex.org/W4225106311","https://openalex.org/W4240924657","https://openalex.org/W4247001379","https://openalex.org/W4289782042","https://openalex.org/W4293514200","https://openalex.org/W4308590396","https://openalex.org/W6767968094","https://openalex.org/W6770216092","https://openalex.org/W6797786779"],"related_works":["https://openalex.org/W4323037479","https://openalex.org/W4311607074","https://openalex.org/W3025486376","https://openalex.org/W3166827729","https://openalex.org/W4362511917","https://openalex.org/W2236776555","https://openalex.org/W2753303236","https://openalex.org/W2082613811","https://openalex.org/W162000807","https://openalex.org/W2353646577"],"abstract_inverted_index":{"The":[0],"volume":[1],"of":[2,36,206],"ribonucleic":[3],"acid":[4],"(RNA)-seq":[5],"data":[6,26,38,127],"has":[7],"increased":[8],"exponentially,":[9],"providing":[10],"numerous":[11],"new":[12],"insights":[13],"into":[14],"various":[15],"biological":[16],"processes.":[17],"However,":[18],"due":[19],"to":[20,32,59,71,81,114,124,139,158],"significant":[21],"practical":[22],"challenges,":[23],"such":[24],"as":[25,97],"heterogeneity,":[27],"it":[28,101],"is":[29,51,102,107,112],"still":[30],"difficult":[31],"ensure":[33],"the":[34,82,92,105,203,207],"quality":[35,43,84,96],"these":[37,55],"when":[39],"integrated.":[40],"Although":[41],"some":[42],"control":[44],"methods":[45,56],"have":[46],"been":[47],"developed,":[48],"sample":[49],"consistency":[50],"rarely":[52],"considered":[53],"and":[54,74,94,111,128,148,162,173,177,190,214],"are":[57],"susceptible":[58],"artificial":[60],"factors.":[61],"Here,":[62],"we":[63,121],"developed":[64],"MassiveQC,":[65],"an":[66],"unsupervised":[67],"machine":[68],"learning-based":[69],"approach,":[70],"automatically":[72],"download":[73],"filter":[75],"large-scale":[76],"high-throughput":[77],"data.":[78,116],"In":[79],"addition":[80],"read":[83],"used":[85],"in":[86,181,196,199],"other":[87],"tools,":[88],"MassiveQC":[89,123],"also":[90,186],"uses":[91],"alignment":[93],"expression":[95,146,154,198],"model":[98],"features.":[99],"Meanwhile,":[100],"user-friendly":[103],"since":[104],"cutoff":[106],"generated":[108,129],"from":[109,137],"self-reporting":[110],"applicable":[113],"multimodal":[115],"To":[117],"explore":[118],"its":[119],"value,":[120],"applied":[122],"Drosophila":[125,191,208],"RNA-seq":[126],"a":[130],"comprehensive":[131],"transcriptome":[132],"atlas":[133],"across":[134],"28":[135],"tissues":[136],"embryogenesis":[138],"adulthood.":[140],"We":[141,185],"systematically":[142],"characterized":[143],"fly":[144],"gene":[145,197],"dynamics":[147,155],"found":[149],"that":[150,188],"genes":[151],"with":[152],"high":[153,169],"were":[156,179],"likely":[157],"be":[159],"evolutionarily":[160],"young":[161],"expressed":[163],"at":[164],"late":[165],"developmental":[166],"stages,":[167],"exhibiting":[168],"nonsynonymous":[170],"substitution":[171],"rates":[172],"low":[174],"phenotypic":[175],"severity,":[176],"they":[178],"involved":[180],"simple":[182],"regulatory":[183],"programs.":[184],"discovered":[187],"human":[189,212],"had":[192],"strong":[193],"positive":[194],"correlations":[195],"orthologous":[200],"organs,":[201],"revealing":[202],"great":[204],"potential":[205],"system":[209],"for":[210],"studying":[211],"development":[213],"disease.":[215]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2023-05-27T00:00:00"}
