CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance.
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Peer-reviewed
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Authors
Poplawski, Radoslaw
Bull, Matthew J
Underwood, Anthony
Abstract
In response to the ongoing SARS-CoV-2 pandemic in the UK, the COVID-19 Genomics UK (COG-UK) consortium was formed to rapidly sequence SARS-CoV-2 genomes as part of a national-scale genomic surveillance strategy. The network consists of universities, academic institutes, regional sequencing centres and the four UK Public Health Agencies. We describe the development and deployment of CLIMB-COVID, an encompassing digital infrastructure to address the challenge of collecting and integrating both genomic sequencing data and sample-associated metadata produced across the COG-UK network.
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Funder: Wellcome Trust
Keywords
Humans, Sequence Analysis, DNA, Genomics, Genome, Viral, User-Computer Interface, Epidemiological Monitoring, Cloud Computing, United Kingdom, Whole Genome Sequencing, COVID-19, SARS-CoV-2
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Medical Research Council (MR/L015080/1)