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VEO report on mutations and variation in publicly shared SARS-CoV-2 raw sequencing data, Report No. 15, 16 March 2023

Thursday 16 Mar 23
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Marion Koopmans
Coordinator of VEO
Erasmus Universitair Medisch Centrum Rotterdam
VEO submits the 15th report on mutations and variation in publicly shared SARS-CoV-2 raw sequencing data.

In its 15th report to the European Commission, VEO Consortium members summarize mobilisation and analysis of SARS-CoV-2 sequence data submitted to the European COVID-19 Data Portal in the context of the VEO project, which aims to develop tools and data analytics for pandemic and outbreak preparedness.

Summary:

  • For SARS-CoV-2, the number of new entries per month is slowing down, in line with reduced testing and sequencing noted across the globe. There now are 6,214,091 raw read sets from 98 countries, a 5.8% increase since the previous report.
  • The automated analysis workflow and a drag and drop submission tool were re-used when the monkeypox outbreak started and is now available in the Pathogens Portal https://www.ebi.ac.uk/ena/pathogens/v2/monkeypox
  • With the real-time pressures for SARS-CoV-2 analysis decreasing, we are preparing to evaluate lessons learned from massively scaling up genomic surveillance using the currently developed public infrastructure. The primary focus will be on re-use of data for in depth research. The available genomes have cumulative information on more than 2 billion mutations/minor variants, which is by far the largest pathogen genome dataset ever. Therefore, the next step is to add options for downselecting to facilitate research access.

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https://www.veo-europe.eu/news/2023/03/veo-report-on-mutations-and-variation-in-publicly-shared-sars-cov-2-raw-sequencing-data-report-no-15
19 JUNE 2024