Integrating genomic epidemiology and deep mutational scanning data for prevalence forecasting of SARS-CoV-2 Omicron lineages

Zhong-yi Lei; Xiao-min Zhang; Jia-lu Han; Ji-guo Xue; Jia-yi Xu; Zi-lin Ren; Yi-gang Tong; Xiao-chen Bo; Ming Ni

doi:10.1371/journal.pone.0335520

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Open Access

Peer-reviewed

Research Article

Integrating genomic epidemiology and deep mutational scanning data for prevalence forecasting of SARS-CoV-2 Omicron lineages

Zhong-yi Lei,

Roles Data curation, Formal analysis, Investigation, Methodology, Validation, Visualization, Writing – original draft

Affiliations College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, China, Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China
⨯
Xiao-min Zhang,

Roles Data curation, Investigation

Affiliation Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China
⨯
Jia-lu Han,

Roles Software

Affiliations Changchun Veterinary Research Institute, Chinese Academy of Agricultural Sciences, State Key Laboratory of Pathogen and Biosecurity, Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Changchun, China, School of Information Science and Technology, Northeast Normal University, Changchun, China
⨯
Ji-guo Xue,

Roles Investigation, Project administration

Affiliation Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China
⨯
Jia-yi Xu,

Roles Data curation, Investigation

Affiliations College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, China, Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China
⨯
Zi-lin Ren ,

Roles Methodology

* E-mail: ni.ming@163.com (MN); boxc@bmi.ac.cn (X-CB); tongyigang@mail.buct.edu.cn (Y-GT); zilin.ren@outlook.com (Z-LR)

Affiliations Changchun Veterinary Research Institute, Chinese Academy of Agricultural Sciences, State Key Laboratory of Pathogen and Biosecurity, Key Laboratory of Jilin Province for Zoonosis Prevention and Control, Changchun, China, School of Information Science and Technology, Northeast Normal University, Changchun, China
⨯
Yi-gang Tong ,

Roles Funding acquisition, Supervision

* E-mail: ni.ming@163.com (MN); boxc@bmi.ac.cn (X-CB); tongyigang@mail.buct.edu.cn (Y-GT); zilin.ren@outlook.com (Z-LR)

Affiliation College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, China
⨯
Xiao-chen Bo ,

Roles Resources, Supervision

* E-mail: ni.ming@163.com (MN); boxc@bmi.ac.cn (X-CB); tongyigang@mail.buct.edu.cn (Y-GT); zilin.ren@outlook.com (Z-LR)

Affiliation Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China
⨯
Ming Ni

Roles Conceptualization, Project administration, Supervision, Writing – review & editing

* E-mail: ni.ming@163.com (MN); boxc@bmi.ac.cn (X-CB); tongyigang@mail.buct.edu.cn (Y-GT); zilin.ren@outlook.com (Z-LR)

Affiliation Advanced & Interdisciplinary Biotechnology, Academy of Military Medical Sciences, Beijing, China

https://orcid.org/0000-0001-9465-2787

⨯

Integrating genomic epidemiology and deep mutational scanning data for prevalence forecasting of SARS-CoV-2 Omicron lineages

Zhong-yi Lei,
Xiao-min Zhang,
Jia-lu Han,
Ji-guo Xue,
Jia-yi Xu,
Zi-lin Ren,
Yi-gang Tong,
Xiao-chen Bo,
Ming Ni

Published: November 3, 2025
https://doi.org/10.1371/journal.pone.0335520

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