Imperial College London
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Ms Olivia Boyd

Faculty of Medicine, School of Public Health

Research Postgraduate
 
 
 
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Contact

 

o.boyd Website

 
 
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Location

 

Medical SchoolSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Geidelberg:2021:ve/veaa102,
author = {Geidelberg, L and Boyd, O and Jorgensen, D and Siveroni, I and Nascimento, FF and Johnson, R and Ragonnet-Cronin, M and Fu, H and Wang, H and Xi, X and Chen, W and Liu, D and Chen, Y and Tian, M and Tan, W and Zai, J and Sun, W and Li, J and Li, J and Volz, E and Li, X and Nie, Q},
doi = {ve/veaa102},
journal = {Virus Evolution},
pages = {1--7},
title = {Genomic epidemiology of a densely sampled COVID-19 outbreak in China},
url = {http://dx.doi.org/10.1093/ve/veaa102},
volume = {7},
year = {2021}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - Analysis of genetic sequence data from the SARS-CoV-2 pandemic can provide insights into epidemic origins, worldwide dispersal, and epidemiological history. With few exceptions, genomic epidemiological analysis has focused on geographically distributed data sets with few isolates in any given location. Here we report an analysis of 20 whole SARS- CoV-2 genomes from a single relatively small and geographically constrained outbreak in Weifang, People’s Republic of China. Using Bayesian model-based phylodynamic methods, we estimate a mean basic reproduction number (R0) of 3.4 (95% highest posterior density interval: 2.1-5.2) in Weifang, and a mean effective reproduction number (Rt ) that falls below 1 on February 4th. We further estimate the number of infections through time and compare these estimates to confirmed diagnoses by the Weifang Centers for Disease Control. We find that these estimates are consistent with reported cases and there is unlikely to be a large undiagnosed burden of infection over the period we studied.
AU  - Geidelberg,L
AU  - Boyd,O
AU  - Jorgensen,D
AU  - Siveroni,I
AU  - Nascimento,FF
AU  - Johnson,R
AU  - Ragonnet-Cronin,M
AU  - Fu,H
AU  - Wang,H
AU  - Xi,X
AU  - Chen,W
AU  - Liu,D
AU  - Chen,Y
AU  - Tian,M
AU  - Tan,W
AU  - Zai,J
AU  - Sun,W
AU  - Li,J
AU  - Li,J
AU  - Volz,E
AU  - Li,X
AU  - Nie,Q
DO  - ve/veaa102
EP  - 7
PY  - 2021///
SN  - 2057-1577
SP  - 1
TI  - Genomic epidemiology of a densely sampled COVID-19 outbreak in China
T2  - Virus Evolution
UR  - http://dx.doi.org/10.1093/ve/veaa102
UR  - https://academic.oup.com/ve/article/7/1/veaa102/6170691
UR  - http://hdl.handle.net/10044/1/84808
VL  - 7
ER  -
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