Mobilisation and analyses of publicly available SARS-CoV-2 data for pandemic responses

Abstract: The COVID-19 pandemic has seen large-scale pathogen genomic sequencing efforts, becoming part of the toolbox for surveillance and epidemic research. This resulted in an unprecedented level of data sharing to open repositories, which has actively supported the identification of SARS-CoV-2 structure, molecular interactions, mutations and variants, and facilitated vaccine development and drug reuse studies and design. The European COVID-19 Data Platform was launched to support this data sharing, and has resulted in the deposition of several million SARS-CoV-2 raw reads. In this paper we describe (1) open data sharing, (2) tools for submission, analysis, visualisation and data claiming (e.g. ORCiD), (3) the systematic analysis of these datasets, at scale via the SARS-CoV-2 Data Hubs as well as (4) lessons learnt. This paper describes a component of the Platform, the SARS-CoV-2 Data Hubs, which enable the extension and set up of infrastructure that we intend to use more widely in the future for pathogen surveillance and pandemic preparedness

Location
Deutsche Nationalbibliothek Frankfurt am Main
Extent
Online-Ressource
Language
Englisch
Notes
Microbial genomics. - 10, 2 (2024) , 001188, ISSN: 2057-5858

Event
Veröffentlichung
(where)
Freiburg
(who)
Universität
(when)
2024
Creator
Rahman, Nadim
Grüning, Björn
Maier, Wolfgang
Cochrane, Guy

DOI
10.1099/mgen.0.001188
URN
urn:nbn:de:bsz:25-freidok-2533300
Rights
Open Access; Der Zugriff auf das Objekt ist unbeschränkt möglich.
Last update
25.03.2025, 1:51 PM CET

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Associated

Time of origin

  • 2024

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