[HTML][HTML] Issues with SARS-CoV-2 sequencing data

N De Maio, C Walker, R Borges, L Weilguny… - 2020 - virological.org
… or who rely on available SARS-CoV-2 genome sequences in … and masking alignments of
SARS-CoV-2 sequences. We also … and high rate of apparent sequencing/mapping errors. We …

Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities

M Chiara, AM D'Erchia, C Gissi… - Briefings in …, 2021 - academic.oup.com
… the production and handling of COVID-19-related sequencing data, and a detailed picture of
… of SARS-CoV-2 sequencing data and metadata. High-throughput sequencing for COVID-19

[HTML][HTML] Global landscape of SARS-CoV-2 genomic surveillance and data sharing

Z Chen, AS Azman, X Chen, J Zou, Y Tian, R Sun… - Nature …, 2022 - nature.com
… We downloaded a total of 5.1 million SARS-CoV-2 sequences from public repositories
corresponding to samples collected between 1 December 2019 and 31 October 2021. After …

[HTML][HTML] Using big sequencing data to identify chronic SARS-Coronavirus-2 infections

S Harari, D Miller, S Fleishon, D Burstein… - Nature …, 2024 - nature.com
… large volume of SARS-CoV-2 sequencing data and metadata to search for sequences that
are … Our approach relies on the idea that there is deposition of viral sequences and metadata …

Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data

MD Parker, BB Lindsey, S Leary, S Gaudieri… - Genome …, 2021 - genome.cshlp.org
SARS-CoV-2 sequence data sets worldwide to detect and quantify sgRNA. Here we applied
… to 1155 SARS-CoV-2 sequences from Sheffield, United Kingdom, and three data sets from …

Insights from SARS-CoV-2 sequences

MA Martin, D VanInsberghe, K Koelle - Science, 2021 - science.org
… tremendous amount of SARS-CoV-2 sequence data is publicly … to accumulate, SARS-CoV-2
sequence data and associated … evolution and adaptation of SARS-CoV-2. The volume of …

Recovery of deleted deep sequencing data sheds more light on the early Wuhan SARS-CoV-2 epidemic

JD Bloom - Molecular Biology and Evolution, 2021 - academic.oup.com
… of SARS-CoV-2 remains shrouded in mystery. Here, I identify a data set containing SARS-CoV-2
sequences … been deleted from the NIH’s Sequence Read Archive. I recover the deleted …

[HTML][HTML] Genomic sequencing effort for SARS-CoV-2 by country during the pandemic

Y Furuse - International Journal of Infectious Diseases, 2021 - Elsevier
SARS-CoV-2 infected cases but few published sequences, we observed good performance
on sequencing … Another caveat is that we did not check the quality of sequence data such as …

[HTML][HTML] An integrated national scale SARS-CoV-2 genomic surveillance network

T COVID - The Lancet. Microbe, 2020 - ncbi.nlm.nih.gov
… of sequence data, we are creating an integrated dataset connecting viral genome data with
multidimensional patient data from … Each week a sequence data cutoff is applied across the …

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

C Chen, S Nadeau, M Yared, P Voinov, N Xie… - …, 2022 - academic.oup.com
SARS-CoV-2 variants around the globe. The website offers users a convenient way to assess
the available SARS-CoV-2 sequencing data … based on globally shared data. As mentioned…