{"doi":"10.1016/j.apsb.2023.11.003","title":"A novel deep generative model for mRNA vaccine development: Designing 5′ UTRs with N1-methyl-pseudouridine modification","abstract":null,"journal":"Acta Pharmaceutica Sinica B","year":2024,"id":605591,"datarank":0.5533319181170905,"base_score":3.6888794541139363,"endowment":3.6888794541139363,"self_citation_contribution":0.5533319181170905,"citation_network_contribution":0.0,"self_endowment_contribution":0.5533319181170905,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":39,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1554251,"name":"Miaozhe Huo","orcid":null,"position":1,"is_corresponding":false},{"id":70291,"name":"Yuting Chen","orcid":"0000-0003-4579-6498","position":2,"is_corresponding":false},{"id":475360,"name":"Hai Huang","orcid":"0000-0002-2013-073X","position":3,"is_corresponding":false},{"id":282910,"name":"Shugang Qin","orcid":"0000-0002-5771-6785","position":4,"is_corresponding":false},{"id":782630,"name":"Jiaqi Luo","orcid":"0000-0002-0973-2633","position":5,"is_corresponding":false},{"id":1554252,"name":"Zeyi Qin","orcid":null,"position":6,"is_corresponding":false},{"id":1279174,"name":"Xin Jiang","orcid":"0000-0003-0991-1436","position":7,"is_corresponding":false},{"id":1128040,"name":"Yongmei Liu","orcid":"0000-0002-6342-5407","position":8,"is_corresponding":false},{"id":299486,"name":"Xing Duan","orcid":"0000-0002-0538-9102","position":9,"is_corresponding":false},{"id":812608,"name":"Ruohan Wang","orcid":"0000-0003-2327-2888","position":10,"is_corresponding":false},{"id":1554253,"name":"Lingxi Chen","orcid":"0000-0002-5229-7470","position":11,"is_corresponding":false},{"id":230524,"name":"Hao Li","orcid":"0000-0002-7577-1366","position":12,"is_corresponding":false},{"id":1554254,"name":"Na Fan","orcid":null,"position":13,"is_corresponding":false},{"id":1554255,"name":"Zhongshan He","orcid":null,"position":14,"is_corresponding":false},{"id":577679,"name":"Xi He","orcid":"0000-0003-2676-9742","position":15,"is_corresponding":false},{"id":48134,"name":"Bairong Shen","orcid":"0000-0003-2899-1531","position":16,"is_corresponding":false},{"id":1554256,"name":"Shuai Cheng Li","orcid":null,"position":17,"is_corresponding":false},{"id":838703,"name":"Xiangrong Song","orcid":"0000-0002-2853-2696","position":18,"is_corresponding":false},{"id":868148,"name":"Xiaoshan Tang","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"A novel deep generative model for mRNA vaccine development: Designing 5′ UTRs with N1-methyl-pseudouridine modification","abstract":"Efficient translation mediated by the 5ʹ untranslated region (5ʹ UTR) is essential for the robust efficacy of mRNA vaccines. However, the N1-methyl-pseudouridine (m1Ψ) modification of mRNA can impact the translation efficiency of the 5ʹ UTR. We discovered that the optimal 5ʹ UTR for m1Ψ-modified mRNA (m1Ψ–5ʹ UTR) differs significantly from its unmodified counterpart, highlighting the need for a specialized tool for designing m1Ψ–5ʹ UTRs rather than directly utilizing high-expression endogenous gene 5ʹ UTRs. In response, we developed a novel machine learning-based tool, Smart5UTR, which employs a deep generative model to identify superior m1Ψ–5ʹ UTRs in silico. The tailored loss function and network architecture enable Smart5UTR to overcome limitations inherent in existing models. As a result, Smart5UTR can successfully design superior 5ʹ UTRs, greatly benefiting mRNA vaccine development. Notably, Smart5UTR-designed superior 5ʹ UTRs significantly enhanced antibody titers induced by COVID-19 mRNA vaccines against the Delta and Omicron variants of SARS-CoV-2, surpassing the performance of vaccines using high-expression endogenous gene 5ʹ UTRs.","is_dataset_classified":null,"base_score":3.6635616461296463,"endowment":3.6635616461296463,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"38572113","pmcid":"PMC10985129","openalex_id":"https://openalex.org/W4388378396","authors":[],"funders":[],"total_grants":0,"fwci":3.5383,"citation_percentile":0.94304389,"influential_citations":0,"citation_trend":[{"year":2024,"count":5},{"year":2025,"count":17},{"year":2026,"count":16}],"oa_status":"gold","license":"cc-by-nc-nd","oa_locations":[{"url":"https://doi.org/10.1016/j.apsb.2023.11.003","host_type":"journal"},{"url":"https://doi.org/10.1016/j.apsb.2023.11.003","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S2211383523004264?httpAccept=text/xml","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S2211383523004264?httpAccept=text/plain","host_type":"publisher"},{"url":"https://pubmed.ncbi.nlm.nih.gov/38572113","host_type":"repository"},{"url":"https://hdl.handle.net/2031/36f4aed7-0cee-48ab-b520-f2885b138552","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10985129","host_type":"repository"},{"url":"https://doaj.org/article/86ce24bef18c4089ae453704e1c42e55","host_type":"repository"},{"url":"https://scholars.cityu.edu.hk/files/189679207/187562286.pdf","host_type":"repository"},{"url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10985129/pdf/main.pdf","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC10985129","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC10985129?pdf=render","host_type":"Europe_PMC"}],"fields_of_study":["RNA and protein synthesis mechanisms","RNA modifications and cancer","RNA Interference and Gene Delivery"],"mesh_terms":[],"keywords":["Translation (biology)","Pseudouridine","Untranslated region","Messenger RNA","Three prime untranslated region","Five prime untranslated region","Computational biology","In silico","Competing endogenous RNA","Function (biology)","Endogeny","Biology","Gene","Cell biology","Genetics","RNA","Transfer RNA","Biochemistry","Long non-coding RNA","Machine Learning","Mrna Design","Sequence Design","5′ Utr","Mrna Vaccine","Covid-19","Sars-cov-2","N1-Methyl-Pseudouridine"],"sdg_mappings":[],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"geo"},{"name":"gen"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-30T02:47:42.987274Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}