A Dynamic Nomenclature Proposal for SARS-CoV-2 Lineages to Assist Genomic Epidemiology¶
Rambaut, A., Holmes, E. C., O’Toole, Á., Hill, V., McCrone, J. T., Ruis, C., du Plessis, L., et al. (2020). A Dynamic Nomenclature Proposal for SARS-CoV-2 Lineages to Assist Genomic Epidemiology. Nature Microbiology, 5(11), 1403-1407.
Cited by¶
2 citations across 2 artifacts.
Each citation links to the sentence it supports in the citing article.
Primes¶
- Clustering
- The same hierarchical-clustering tools applied to species phylogeny travel to viral-genome clustering for outbreak source tracing, with SARS-CoV-2 lineage analysis structurally the same move at shorter time scales.
This sourceHierarchical/phylogenetic clustering of viral genomes into lineages for outbreak source tracing.
Supported in partVerified against the work's full text
The paper applies phylogenetic lineage designation to SARS-CoV-2 genomes and says shared labels reveal links between outbreaks, but not hierarchical-clustering transfer from species phylogeny.
“revealing the links between outbreaks that share similar virus genomes”
- The same hierarchical-clustering tools applied to species phylogeny travel to viral-genome clustering for outbreak source tracing, with SARS-CoV-2 lineage analysis structurally the same move at shorter time scales.
- Identity Test
- And the phylogenetic discipline of identity-by-monophyly transferred into pandemic surveillance as lineage and clade definitions, reusing the same identity-test logic on a faster-moving substrate.
This sourceDefines lineage/clade identity by phylogenetic monophyly for pandemic surveillance — the same-lineage identity test on a fast-moving substrate.
Supported in partVerified against the work's full text
Rambaut et al. define clades as monophyletic groups and build SARS-CoV-2 lineage nomenclature on a phylogenetic framework; the claimed transfer and reuse of identity-test logic is interpretation.
“each corresponding to a monophyletic group on a phylogenetic tree”
- And the phylogenetic discipline of identity-by-monophyly transferred into pandemic surveillance as lineage and clade definitions, reusing the same identity-test logic on a faster-moving substrate.
Verification¶
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