Unsupervised cluster analysis of SARS‐CoV‐2 genomes reflects its geographic progression and identifies distinct genetic subgroups of SARS‐CoV‐2 virus-Reference-Cited by-同舟云学术

Unsupervised cluster analysis of SARS‐CoV‐2 genomes reflects its geographic progression and identifies distinct genetic subgroups of SARS‐CoV‐2 virus

Published:2021-01-08 Issue:3 Volume:45 Page:316-323
ISSN:0741-0395
Container-title:Genetic Epidemiology
language:en
Short-container-title:Genetic Epidemiology

Author:

Hahn Georg¹^ORCID,Lee Sanghun¹²,Weiss Scott T.³,Lange Christoph¹

Affiliation:

1. Department of Biostatistics, T.H. Chan School of Public Health Harvard University Boston Massachusetts USA

2. Department of Medical Consilience, Graduate School Dankook University Yongin‐si South Korea

3. Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital Harvard Medical School Boston Massachusetts USA

Funder

National Human Genome Research Institute

National Heart, Lung, and Blood Institute

Publisher

Wiley

Subject

Genetics(clinical),Epidemiology

Link

https://onlinelibrary.wiley.com/doi/pdf/10.1002/gepi.22373

Reference24 articles.

1. Data, disease and diplomacy: GISAID's innovative contribution to global health

2. Freunde of GISAID e.V.(2020). Global initiative on sharing all influenza data—TreeTool app.https://www.gisaid.org/epiflu-applications/upcoming-features-in-v20/treetool-app/

3. Hahn G. Cho M. H. Weiss S. T. Silverman E. K. &Lange C.(2020a). Unsupervised cluster analysis of SARS‐CoV‐2 genomes indicates that recent (June 2020) cases in Beijing are from a genetic subgroup that consists of mostly European and South (east) Asian samples of which the latter are the most recent. bioRxiv:2020.06.22.165936.

4. Hahn G. Lutz S. Hecker J. Prokopenko D. Cho M. Silverman E. Weiss S. &Lange C.(2020b). Locstra: Fast analysis of regional/global stratification in whole genome sequencing (WGS) studies. Accepted for publication with Genetic Epidemiology. Preprint at bioRxiv:2020.03.06.981050.

5. Hahn G. Lutz S. &Lange C.(2020c). LocStra: Fast implementation of (Local) population stratification methods (v1.3).https://cran.r-project.org/web/packages/locStra/index.html

Cited by 5 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. SARS-CoV-2 Variants and Multisystem Inflammatory Syndrome in Children;New England Journal of Medicine;2023-04-27

2. Unsupervised outlier detection applied to SARS-CoV-2 nucleotide sequences can identify sequences of common variants and other variants of interest;BMC Bioinformatics;2022-12-19

3. Genomic and structural mechanistic insight to reveal the differential infectivity of omicron and other variants of concern;Computers in Biology and Medicine;2022-11

4. COVID-19: Integrating genomic and epidemiological data to inform public health interventions and policy in Tasmania, Australia;Western Pacific Surveillance and Response Journal;2021-10-01

5. Genome‐wide association analysis of COVID‐19 mortality risk in SARS‐CoV‐2 genomes identifies mutation in the SARS‐CoV‐2 spike protein that colocalizes with P.1 of the Brazilian strain;Genetic Epidemiology;2021-06-22