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VEO report on mutations and variation in publicly shared SARS-CoV-2 raw sequencing data, Report No. 9, 15 November 2021

Monday 15 Nov 21
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Contact

Marion Koopmans
Coordinator of VEO, Co-coordinator of COMPARE
Erasmus Universitair Medisch Centrum Rotterdam
VEO submits the ninth report on mutations and variation in publicly shared SARS-CoV-2 raw sequencing data.

In its ninth 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 Platform in the context of the VEO project, which aims to develop tools and data analytics for pandemic and outbreak preparedness.

Summary:

  • Update on mobilisation of raw reads, now totaling sequencing data sets from 1,876,126 viral raw read sets from 80 countries, a 21% increase since the previous report.
  • The variant nomenclature has been updated, and tables on countries depositing data on VOC and VOI have been included.
  • The variant calling workflow for the Oxford Nanopore data has been implemented and 83,041 samples of the total 172,654 have been processed so far.
  • While data mobilisation is progressing, the contribution of countries in Europe is very low. Pathogen sequencing in most countries has been taken up as part of a public health effort, in part supported by HERA/ECDC. Agreements are needed to ensure release of raw data towards global sharing effort.

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28 NOVEMBER 2021