Article ; Online: COVID-19 CG enables SARS-CoV-2 mutation and lineage tracking by locations and dates of interest.
2021 Volume 10
Abstract: COVID-19 CG (covidcg.org) is an open resource for tracking SARS-CoV-2 single-nucleotide variations ... date, gene, and mutation of interest. COVID-19 CG provides significant time, labor, and cost-saving ... intervention tracking. Here, we describe case studies in which users can interrogate (1) SNVs in the SARS-CoV-2 ...
| Abstract | COVID-19 CG (covidcg.org) is an open resource for tracking SARS-CoV-2 single-nucleotide variations (SNVs), lineages, and clades using the virus genomes on the GISAID database while filtering by location, date, gene, and mutation of interest. COVID-19 CG provides significant time, labor, and cost-saving utility to projects on SARS-CoV-2 transmission, evolution, diagnostics, therapeutics, vaccines, and intervention tracking. Here, we describe case studies in which users can interrogate (1) SNVs in the SARS-CoV-2 spike receptor binding domain (RBD) across different geographical regions to inform the design and testing of therapeutics, (2) SNVs that may impact the sensitivity of commonly used diagnostic primers, and (3) the emergence of a dominant lineage harboring an S477N RBD mutation in Australia in 2020. To accelerate COVID-19 efforts, COVID-19 CG will be upgraded with new features for users to rapidly pinpoint mutations as the virus evolves throughout the pandemic and in response to therapeutic and public health interventions. |
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| MeSH term(s) | Amino Acid Sequence ; Binding Sites/genetics ; COVID-19/epidemiology ; COVID-19/prevention & control ; COVID-19/virology ; Computational Biology/methods ; Genome, Viral/genetics ; Geography ; Global Health ; Humans ; Internet ; Mutation ; Pandemics ; Patient Identification Systems/methods ; Phylogeny ; SARS-CoV-2/classification ; SARS-CoV-2/genetics ; SARS-CoV-2/physiology ; Sequence Homology, Amino Acid ; Software ; Spike Glycoprotein, Coronavirus/genetics ; Spike Glycoprotein, Coronavirus/metabolism |
| Chemical Substances | Spike Glycoprotein, Coronavirus ; spike protein, SARS-CoV-2 |
| Language | English |
| Publishing date | 2021-02-23 |
| Publishing country | England |
| Document type | Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't |
| ZDB-ID | 2687154-3 |
| ISSN | 2050-084X ; 2050-084X |
| ISSN (online) | 2050-084X |
| ISSN | 2050-084X |
| DOI | 10.7554/eLife.63409 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
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