Imperial College London
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Charlie Whittaker

Faculty of Medicine, School of Public Health

Research Fellow
 
 
 
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Contact

 

charles.whittaker16

 
 
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Location

 

Sir Michael Uren HubWhite City Campus

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Summary

 

Publications

Citation

BibTex format

@unpublished{Brito:2021:10.1101/2021.08.21.21262393,
author = {Brito, AF and Semenova, E and Dudas, G and Hassler, GW and Kalinich, CC and Kraemer, MUG and Ho, J and Tegally, H and Githinji, G and Agoti, CN and Matkin, LE and Whittaker, C and Danish, Covid-19 Genome Consortium and COVID-19, Impact Project and Network, for Genomic Surveillance in South Africa NGS-SA and GISAID, core curation team and Howden, BP and Sintchenko, V and Zuckerman, NS and Mor, O and Blankenship, HM and de, Oliveira T and Lin, RTP and Siqueira, MM and Resende, PC and Vasconcelos, ATR and Spilki, FR and Aguiar, RS and Alexiev, I and Ivanov, IN and Philipova, I and Carrington, CVF and Sahadeo, NSD and Gurry, C and Maurer-Stroh, S and Naidoo, D and von, Eije KJ and Perkins, MD and van, Kerkhove M and Hill, SC and Sabino, EC and Pybus, OG and Dye, C and Bhatt, S and Flaxman, S and Suchard, MA and Grubaugh, ND and Baele, G and Faria, NR},
doi = {10.1101/2021.08.21.21262393},
title = {Global disparities in SARS-CoV-2 genomic surveillance.},
url = {http://dx.doi.org/10.1101/2021.08.21.21262393},
year = {2021}
}
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RIS format (EndNote, RefMan)

TY  - UNPB
AB  - Genomic sequencing provides critical information to track the evolution and spread of SARS-CoV-2, optimize molecular tests, treatments and vaccines, and guide public health responses. To investigate the spatiotemporal heterogeneity in the global SARS-CoV-2 genomic surveillance, we estimated the impact of sequencing intensity and turnaround times (TAT) on variant detection in 167 countries. Most countries submit genomes >21 days after sample collection, and 77% of low and middle income countries sequenced <0.5% of their cases. We found that sequencing at least 0.5% of the cases, with a TAT <21 days, could be a benchmark for SARS-CoV-2 genomic surveillance efforts. Socioeconomic inequalities substantially impact our ability to quickly detect SARS-CoV-2 variants, and undermine the global pandemic preparedness.
AU  - Brito,AF
AU  - Semenova,E
AU  - Dudas,G
AU  - Hassler,GW
AU  - Kalinich,CC
AU  - Kraemer,MUG
AU  - Ho,J
AU  - Tegally,H
AU  - Githinji,G
AU  - Agoti,CN
AU  - Matkin,LE
AU  - Whittaker,C
AU  - Danish,Covid-19 Genome Consortium
AU  - COVID-19,Impact Project
AU  - Network,for Genomic Surveillance in South Africa NGS-SA
AU  - GISAID,core curation team
AU  - Howden,BP
AU  - Sintchenko,V
AU  - Zuckerman,NS
AU  - Mor,O
AU  - Blankenship,HM
AU  - de,Oliveira T
AU  - Lin,RTP
AU  - Siqueira,MM
AU  - Resende,PC
AU  - Vasconcelos,ATR
AU  - Spilki,FR
AU  - Aguiar,RS
AU  - Alexiev,I
AU  - Ivanov,IN
AU  - Philipova,I
AU  - Carrington,CVF
AU  - Sahadeo,NSD
AU  - Gurry,C
AU  - Maurer-Stroh,S
AU  - Naidoo,D
AU  - von,Eije KJ
AU  - Perkins,MD
AU  - van,Kerkhove M
AU  - Hill,SC
AU  - Sabino,EC
AU  - Pybus,OG
AU  - Dye,C
AU  - Bhatt,S
AU  - Flaxman,S
AU  - Suchard,MA
AU  - Grubaugh,ND
AU  - Baele,G
AU  - Faria,NR
DO  - 10.1101/2021.08.21.21262393
PY  - 2021///
TI  - Global disparities in SARS-CoV-2 genomic surveillance.
UR  - http://dx.doi.org/10.1101/2021.08.21.21262393
UR  - https://www.ncbi.nlm.nih.gov/pubmed/34462754
ER  -
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