Robust expansion of phylogeny for fast-growing genome sequence data

Yongtao Ye; Marcus H. Shum; Joseph L. Tsui; Guangchuang Yu; David K. Smith; Huachen Zhu; Joseph T. Wu; Yi Guan; Tommy Tsan-Yuk Lam

doi:10.1371/journal.pcbi.1011871

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Peer-reviewed

Robust expansion of phylogeny for fast-growing genome sequence data

Yongtao Ye ,

Contributed equally to this work with: Yongtao Ye, Marcus H. Shum, Joseph L. Tsui, Guangchuang Yu

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Resources, Software, Validation, Visualization, Writing – original draft, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China
⨯
Marcus H. Shum ,

Contributed equally to this work with: Yongtao Ye, Marcus H. Shum, Joseph L. Tsui, Guangchuang Yu

Roles Conceptualization, Data curation, Resources, Visualization, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China
⨯
Joseph L. Tsui ,

Contributed equally to this work with: Yongtao Ye, Marcus H. Shum, Joseph L. Tsui, Guangchuang Yu

Roles Data curation, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China
⨯
Guangchuang Yu ,

Contributed equally to this work with: Yongtao Ye, Marcus H. Shum, Joseph L. Tsui, Guangchuang Yu

Roles Conceptualization, Data curation, Software

Affiliation Department of Bioinformatics, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong, China

https://orcid.org/0000-0002-6485-8781

⨯
David K. Smith,

Roles Writing – review & editing

Affiliation State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China
⨯
Huachen Zhu,

Roles Funding acquisition, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China, Guangdong-Hongkong Joint Laboratory of Emerging Infectious Diseases, Joint Institute of Virology (Shantou University/The University of Hong Kong), Shantou, Guangdong, P. R. China, EKIH (Gewuzhikang) Pathogen Research Institute, Futian District, Shenzhen City, Guangdong, P. R. China
⨯
Joseph T. Wu,

Roles Funding acquisition, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China
⨯
Yi Guan,

Roles Funding acquisition, Writing – review & editing

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China, Guangdong-Hongkong Joint Laboratory of Emerging Infectious Diseases, Joint Institute of Virology (Shantou University/The University of Hong Kong), Shantou, Guangdong, P. R. China, EKIH (Gewuzhikang) Pathogen Research Institute, Futian District, Shenzhen City, Guangdong, P. R. China
⨯
Tommy Tsan-Yuk Lam

Roles Conceptualization, Funding acquisition, Project administration, Software, Supervision, Writing – review & editing

* E-mail: ttylam@hku.hk

Affiliations State Key Laboratory of Emerging Infectious Diseases, School of Public Health, The University of Hong Kong, Hong Kong SAR, P. R. China, Laboratory of Data Discovery for Health Limited, 19W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China, Guangdong-Hongkong Joint Laboratory of Emerging Infectious Diseases, Joint Institute of Virology (Shantou University/The University of Hong Kong), Shantou, Guangdong, P. R. China, EKIH (Gewuzhikang) Pathogen Research Institute, Futian District, Shenzhen City, Guangdong, P. R. China, Centre for Immunology & Infection Limited, 17W Hong Kong Science & Technology Parks, Hong Kong SAR, P. R. China

https://orcid.org/0000-0002-9769-1527

⨯

Robust expansion of phylogeny for fast-growing genome sequence data

Yongtao Ye,
Marcus H. Shum,
Joseph L. Tsui,
Guangchuang Yu,
David K. Smith,
Huachen Zhu,
Joseph T. Wu,
Yi Guan,
Tommy Tsan-Yuk Lam

Published: February 8, 2024
https://doi.org/10.1371/journal.pcbi.1011871

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