Preprint Review Version 1 Preserved in Portico This version is not peer-reviewed

A Review on Viral Data Sources and Integration Methods for COVID-19 Mitigation

Version 1 : Received: 4 August 2020 / Approved: 5 August 2020 / Online: 5 August 2020 (10:58:27 CEST)

A peer-reviewed article of this Preprint also exists.

Journal reference: Briefings in Bioinformatics 2020
DOI: 10.1093/bib/bbaa359


With the outbreak of the COVID-19 disease, the research community is producing unprecedented efforts dedicated to better understand and mitigate the affects of the pandemic. In this context, we review the data integration efforts required for accessing and searching genome sequences and metadata of SARS-CoV2, the virus responsible for the COVID-19 disease, which have been deposited into the most important repositories of viral sequences. Organizations that were already present in the virus domain are now dedicating special interest to the emergence of COVID-19 pandemics, by emphasizing specific SARS-CoV2 data and services. At the same time, novel organizations and resources were born in this critical period to serve specifically the purposes of COVID-19 mitigation, while setting the research ground for contrasting possible future pandemics. Accessibility and integration of viral sequence data, possibly in conjunction with the human host genotype and clinical data, are paramount to better understand the COVID-19 disease and mitigate its effects.


epidemic; viral sequences; genomics; metadata; data harmonization; integration and search



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