… Here we leverage a subset of those data—genomic … spread of different SARS-CoV-2 lineages
and reconstruct how newly … quantitative reconstruction of different periods of the epidemic…

… comprehensively using systematic genomic surveillance and spatio-… epidemic. Over the
period of investigation, we estimate that the average transmissibility of SARS-CoV-2 in the UK …

… We identified subsequent early outbreaks in the community, … state of the Scottish trait was
reconstructed on the phylogeny; (… polytomies and thus the parsimony reconstruction of a trait on …

… In this study, we reconstructed SARS-CoV-2 outbreaks in a large NHS teaching hospital
trust in England during the first two UK epidemic waves. We integrated over 2000 viral genomic …

… Here we reconstructed the SARS-CoV-2 epidemic in England from September 2020 to
June 2021 in unprecedented genomic, spatial and temporal detail thanks to dense genomic …

In the version of this article initially published, the name of author Erik Volz appeared as “Erik
M. Volz” in The COVID-19 Genomics UK (COG-UK) Consortium contributions listings. …

… variation in SARS-CoV-2 and the apparently small size of the transmission bottleneck could
limit our capability to reconstruct local SARS-CoV-2 outbreaks in detail using only genomic …

… We classified cases according to epidemiological definitions, sought epidemiological …
genomic evidence supporting transmission. We compared epidemiological and genomic outbreak …

… 42 valuable epidemiological analyses using … SARS-CoV-2 variants. This study demonstrates
44 the comprehensiveness of England’s sequencing throughout the COVID-19 pandemic, …

… UK SARS-CoV-2 genomes that had been assigned to lineage B.1.1.7 and that showed evidence
of being the product of combining different genetic … Phylogenetic reconstruction of 2,000 …