CoV-Spectrum: analysis of globally shared SARS-CoV-2 data to identify and characterize new variants

Abstract Summary The CoV-Spectrum website supports the identification of new SARS-CoV-2 variants of concern and the tracking of known variants. Its flexible amino acid and nucleotide mutation search allows querying of variants before they are designated by a lineage nomenclature system. The platform...

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Published inBioinformatics Vol. 38; no. 6; pp. 1735 - 1737
Main Authors Chen, Chaoran, Nadeau, Sarah, Yared, Michael, Voinov, Philippe, Xie, Ning, Roemer, Cornelius, Stadler, Tanja
Format Journal Article
LanguageEnglish
Published England Oxford University Press 04.03.2022
Subjects
Amino Acids
Applications Notes
COVID-19
Humans
Mutation
SARS-CoV-2
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Summary:Abstract Summary The CoV-Spectrum website supports the identification of new SARS-CoV-2 variants of concern and the tracking of known variants. Its flexible amino acid and nucleotide mutation search allows querying of variants before they are designated by a lineage nomenclature system. The platform brings together SARS-CoV-2 data from different sources and applies analyses. Results include the proportion of different variants over time, their demographic and geographic distributions, common mutations, hospitalization and mortality probabilities, estimates for transmission fitness advantage and insights obtained from wastewater samples. Availability and implementation CoV-Spectrum is available at https://cov-spectrum.org. The code is released under the GPL-3.0 license at https://github.com/cevo-public/cov-spectrum-website.
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ISSN:1367-4803
1367-4811
1460-2059
1367-4811
DOI:10.1093/bioinformatics/btab856