{"id":"https://openalex.org/W4316339987","doi":"https://doi.org/10.1093/bib/bbad001","title":"Integrated mRNA sequence optimization using deep learning","display_name":"Integrated mRNA sequence optimization using deep learning","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W4316339987","doi":"https://doi.org/10.1093/bib/bbad001","pmid":"https://pubmed.ncbi.nlm.nih.gov/36642413"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad001","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad001","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbad001/48782582/bbad001.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/article-pdf/24/1/bbad001/48782582/bbad001.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051646038","display_name":"Haoran Gong","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]},{"id":"https://openalex.org/I2800091995","display_name":"West China Medical Center of Sichuan University","ror":"https://ror.org/040nggs60","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I24185976","https://openalex.org/I2800091995"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haoran Gong","raw_affiliation_strings":["Med-X Center for Informatics, Sichuan University , Chengdu 610041 , China","West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China"],"affiliations":[{"raw_affiliation_string":"Med-X Center for Informatics, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I24185976"]},{"raw_affiliation_string":"West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I2800091995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100641777","display_name":"Jianguo Wen","orcid":"https://orcid.org/0000-0003-0952-118X"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jianguo Wen","raw_affiliation_strings":["Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston, Texas, 77030 , USA","McGovern Medical School, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA"],"affiliations":[{"raw_affiliation_string":"Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston, Texas, 77030 , USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"McGovern Medical School, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA","institution_ids":["https://openalex.org/I919571938"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061423184","display_name":"Ruihan Luo","orcid":"https://orcid.org/0000-0001-5997-4051"},"institutions":[{"id":"https://openalex.org/I2800091995","display_name":"West China Medical Center of Sichuan University","ror":"https://ror.org/040nggs60","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I24185976","https://openalex.org/I2800091995"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ruihan Luo","raw_affiliation_strings":["West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China"],"affiliations":[{"raw_affiliation_string":"West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I2800091995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022870859","display_name":"Yuzhou Feng","orcid":"https://orcid.org/0000-0003-0735-2677"},"institutions":[{"id":"https://openalex.org/I2800091995","display_name":"West China Medical Center of Sichuan University","ror":"https://ror.org/040nggs60","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I24185976","https://openalex.org/I2800091995"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuzhou Feng","raw_affiliation_strings":["West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China"],"affiliations":[{"raw_affiliation_string":"West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I2800091995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068721005","display_name":"Jingjing Guo","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]},{"id":"https://openalex.org/I2800091995","display_name":"West China Medical Center of Sichuan University","ror":"https://ror.org/040nggs60","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I24185976","https://openalex.org/I2800091995"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"JingJing Guo","raw_affiliation_strings":["Med-X Center for Informatics, Sichuan University , Chengdu 610041 , China","West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China"],"affiliations":[{"raw_affiliation_string":"Med-X Center for Informatics, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I24185976"]},{"raw_affiliation_string":"West China Biomedical Big Data Center, West China Hospital, Sichuan University , Chengdu 610041 , China","institution_ids":["https://openalex.org/I2800091995"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103362331","display_name":"Hongguang Fu","orcid":null},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongguang Fu","raw_affiliation_strings":["University of Electronic Science and Technology of China , Chengdu 611731 , China"],"affiliations":[{"raw_affiliation_string":"University of Electronic Science and Technology of China , Chengdu 611731 , China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040883232","display_name":"Xiaobo Zhou","orcid":"https://orcid.org/0000-0001-7191-6495"},"institutions":[{"id":"https://openalex.org/I919571938","display_name":"The University of Texas Health Science Center at Houston","ror":"https://ror.org/03gds6c39","country_code":"US","type":"education","lineage":["https://openalex.org/I919571938"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xiaobo Zhou","raw_affiliation_strings":["Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston, Texas, 77030 , USA","McGovern Medical School, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA","School of Dentistry, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA"],"affiliations":[{"raw_affiliation_string":"Center for Computational Systems Medicine, School of Biomedical Informatics, The University of Texas Health Science Center at Houston , Houston, Texas, 77030 , USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"McGovern Medical School, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA","institution_ids":["https://openalex.org/I919571938"]},{"raw_affiliation_string":"School of Dentistry, The University of Texas Health Science Center at Houston , Houston, TX 77030 , USA","institution_ids":["https://openalex.org/I919571938"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5040883232"],"corresponding_institution_ids":["https://openalex.org/I919571938"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.9105,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.96760336,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"24","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987000226974487,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987000226974487,"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":0.9944000244140625,"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/T10604","display_name":"RNA Research and Splicing","score":0.9898999929428101,"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/sequence","display_name":"Sequence (biology)","score":0.6194053888320923},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5496337413787842},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5316617488861084},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.5301198363304138},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4582267701625824},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2294573187828064},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1623629331588745}],"concepts":[{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6194053888320923},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5496337413787842},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5316617488861084},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.5301198363304138},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4582267701625824},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2294573187828064},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1623629331588745}],"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":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbad001","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad001","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbad001/48782582/bbad001.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:36642413","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36642413","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:9851294","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9851294","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC9851294/pdf/bbad001.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:digitalcommons.library.tmc.edu:uthshis_docs-1315","is_oa":false,"landing_page_url":"https://digitalcommons.library.tmc.edu/uthshis_docs/314","pdf_url":null,"source":{"id":"https://openalex.org/S4377196655","display_name":"Digital Commons-TMC (Texas Medical Center)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1337852284","host_organization_name":"Texas Medical Center","host_organization_lineage":["https://openalex.org/I1337852284"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal Articles","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbad001","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad001","pdf_url":"https://academic.oup.com/bib/article-pdf/24/1/bbad001/48782582/bbad001.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":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8399999737739563}],"awards":[{"id":"https://openalex.org/G1121271761","display_name":null,"funder_award_id":"Program","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2101313220","display_name":null,"funder_award_id":"AR069395","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2286337162","display_name":null,"funder_award_id":"2217515","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2719934677","display_name":null,"funder_award_id":"R01CA241930","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G291053052","display_name":null,"funder_award_id":"139170052","funder_id":"https://openalex.org/F4320336042","funder_display_name":"West China Hospital, Sichuan University"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3576867915","display_name":null,"funder_award_id":"61876034","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3611247453","display_name":null,"funder_award_id":"R01GM","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4020255992","display_name":null,"funder_award_id":"Project","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4937952549","display_name":null,"funder_award_id":"2022YFS0228","funder_id":"https://openalex.org/F4320336042","funder_display_name":"West China Hospital, Sichuan University"},{"id":"https://openalex.org/G5644764193","display_name":null,"funder_award_id":"17005","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5939423041","display_name":null,"funder_award_id":"Technology","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6002909521","display_name":null,"funder_award_id":"2019HXFH022","funder_id":"https://openalex.org/F4320322990","funder_display_name":"Sichuan University"},{"id":"https://openalex.org/G6919112675","display_name":null,"funder_award_id":"139170052","funder_id":"https://openalex.org/F4320322990","funder_display_name":"Sichuan University"},{"id":"https://openalex.org/G7741896822","display_name":null,"funder_award_id":"R01GM123037","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7811018383","display_name":null,"funder_award_id":"U01AR069395","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7908063170","display_name":null,"funder_award_id":"2217515","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8170369591","display_name":null,"funder_award_id":"2019HXFH022","funder_id":"https://openalex.org/F4320336042","funder_display_name":"West China Hospital, Sichuan University"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322990","display_name":"Sichuan University","ror":"https://ror.org/011ashp19"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320336042","display_name":"West China Hospital, Sichuan University","ror":"https://ror.org/007mrxy13"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4316339987.pdf"},"referenced_works_count":67,"referenced_works":["https://openalex.org/W29899406","https://openalex.org/W1484915017","https://openalex.org/W1539868719","https://openalex.org/W1760665500","https://openalex.org/W1892182006","https://openalex.org/W1940872118","https://openalex.org/W2000810592","https://openalex.org/W2012560912","https://openalex.org/W2025763720","https://openalex.org/W2057401334","https://openalex.org/W2062299199","https://openalex.org/W2070915898","https://openalex.org/W2072284352","https://openalex.org/W2097690965","https://openalex.org/W2112142169","https://openalex.org/W2119336718","https://openalex.org/W2148734328","https://openalex.org/W2154241726","https://openalex.org/W2165669669","https://openalex.org/W2169353679","https://openalex.org/W2178279848","https://openalex.org/W2202042777","https://openalex.org/W2519093943","https://openalex.org/W2524169008","https://openalex.org/W2525778437","https://openalex.org/W2750779823","https://openalex.org/W2762868004","https://openalex.org/W2770378609","https://openalex.org/W2790531361","https://openalex.org/W2792094507","https://openalex.org/W2898440040","https://openalex.org/W2903777694","https://openalex.org/W2914767245","https://openalex.org/W2945215758","https://openalex.org/W2955231772","https://openalex.org/W2970739114","https://openalex.org/W2972054455","https://openalex.org/W2996428491","https://openalex.org/W3001434439","https://openalex.org/W3011203304","https://openalex.org/W3014278465","https://openalex.org/W3047091198","https://openalex.org/W3093282046","https://openalex.org/W3105966348","https://openalex.org/W3122097151","https://openalex.org/W3126657865","https://openalex.org/W3130729977","https://openalex.org/W3131348899","https://openalex.org/W3137469790","https://openalex.org/W3173783447","https://openalex.org/W3177545102","https://openalex.org/W3204608165","https://openalex.org/W3211380677","https://openalex.org/W4205185581","https://openalex.org/W4225982774","https://openalex.org/W4226258784","https://openalex.org/W4283511993","https://openalex.org/W4385245566","https://openalex.org/W6640362995","https://openalex.org/W6650764863","https://openalex.org/W6727690538","https://openalex.org/W6739901393","https://openalex.org/W6749749692","https://openalex.org/W6768021236","https://openalex.org/W6768086466","https://openalex.org/W6779073920","https://openalex.org/W6810307451"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W3215138031","https://openalex.org/W3009238340","https://openalex.org/W4360585206","https://openalex.org/W4321369474","https://openalex.org/W4285208911","https://openalex.org/W3082895349","https://openalex.org/W4213079790","https://openalex.org/W2248239756","https://openalex.org/W3086377361"],"abstract_inverted_index":{"The":[0,125],"coronavirus":[1,30],"disease":[2],"of":[3,11,21,55,64,132,138,164,189],"2019":[4],"pandemic":[5],"has":[6],"catalyzed":[7],"the":[8,18,68,105,122,129,136,146,162,169,187],"rapid":[9],"development":[10,188],"mRNA":[12,19,47,56,147,178,190],"vaccines,":[13],"whereas,":[14],"how":[15],"to":[16,33,51,103,120,176,186],"optimize":[17,52],"sequence":[20,148,179],"exogenous":[22,133],"gene":[23,141],"such":[24],"as":[25],"severe":[26],"acute":[27],"respiratory":[28],"syndrome":[29],"2":[31],"spike":[32],"fit":[34],"human":[35,139],"cells":[36],"remains":[37],"a":[38],"critical":[39],"challenge.":[40],"A":[41],"new":[42],"algorithm,":[43],"iDRO":[44,73],"(integrated":[45],"deep-learning-based":[46],"optimization),":[48],"is":[49,101,118,168],"developed":[50],"multiple":[53],"components":[54],"sequences":[57,63,131],"based":[58],"on":[59],"given":[60],"amino":[61,109],"acid":[62],"target":[65],"protein.":[66],"Considering":[67],"biological":[69],"constraints,":[70],"we":[71],"divided":[72],"into":[74],"two":[75],"steps:":[76],"open":[77],"reading":[78],"frame":[79],"(ORF)":[80],"optimization":[81],"and":[82,87,181],"5'":[83],"untranslated":[84],"region":[85],"(UTR)":[86],"3'UTR":[88],"generation.":[89],"In":[90,111,143],"ORF":[91],"optimization,":[92,180],"BiLSTM-CRF":[93],"(bidirectional":[94,115],"long-short-term":[95],"memory":[96],"with":[97,154],"conditional":[98],"random":[99],"field)":[100],"employed":[102],"determine":[104],"codon":[106],"for":[107],"each":[108],"acid.":[110],"UTR":[112],"generation,":[113],"RNA-Bart":[114],"auto-regressive":[116],"transformer)":[117],"proposed":[119],"output":[121],"corresponding":[123],"UTR.":[124],"results":[126,183],"show":[127],"that":[128],"optimized":[130,149],"genes":[134],"acquired":[135],"pattern":[137],"endogenous":[140],"sequence.":[142],"experimental":[144],"validation,":[145],"by":[150,172],"our":[151,165],"method,":[152,156],"compared":[153],"conventional":[155],"shows":[157],"higher":[158],"protein":[159],"expression.":[160],"To":[161],"best":[163],"knowledge,":[166],"this":[167],"first":[170],"study":[171],"introducing":[173],"deep-learning":[174],"methods":[175],"integrated":[177],"these":[182],"may":[184],"contribute":[185],"therapeutics.":[191]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":14},{"year":2023,"cited_by_count":6}],"updated_date":"2026-04-15T08:11:43.952461","created_date":"2025-10-10T00:00:00"}