Module 3.5 – Public genome repositories for SARS-CoV-2

Overview: This module introduces two public repositories for sharing SARS-CoV-2 genome sequence data and basic tips for searching them.

Posted: 04/16/21

Presenter: Michael Weigand, PhD​​ (view bio)
Bioinformatician​, CDC

Download Presentation Slides pdf icon[PDF – 20 slides]

Further Reading:

1. Global Initiative on Sharing All Influenza Data (GISAID).external icon
2. National Center for Biotechnology Information (NCBI) SARS-CoV-2 resources.external icon
3. NCBI Virus SARS-CoV-2 data dashboard.external icon
4. NCBI Umbrella BioProject of US sequencing efforts.external icon
5. NCBI GenBank submission.external icon
6. NCBI SRA submission.external icon
7. Public Health Alliance for Genomic Epidemiology (PHA4GE) resources.external icon
8. Public Health Alliance for Genomic Epidemiology (PHA4GE) protocols.external icon
9. SARS-CoV-2 GISAID submission protocol.external icon
10. SARS-CoV-2 GenBank submission protocol.external icon
11. SARS-CoV-2 SRA submission protocol.external icon

Additional Resources:

1. Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group.external icon
   Austin, et al. Wellcome Open Research, updated 2021.
2. Shortcomings of SARS-CoV-2 genomic metadata. Gozashti and Corbett-Detig.external icon
   BMC Res Notes, 2021.