Posted: Jan 25, 2020 ------
Seeing the news on the growing threat of a Coronavirus pandemic, I’m reminded of just how interconnected we all are on this planet. Within a few short weeks, this deadly virus managed to make its way across species and oceans to a dozen different countries, affecting thousands of people. We still don’t know how severe this strain of Coronavirus will be and it’s hard not to be driven to join the fight against it.
We live in an era of unprecedented genomic technology with brilliant scientists that work tirelessly each day to gain deeper understanding into the inner workings of our biology and the diseases that afflict us. I believe that our greatest work stands before us and will be achieved through collaboration. While technical, organizational or resource constraints often slow our progress in other areas, we can overcome these now to collaborate for the cure.
Today we've launched the Coronavirus Community Space to provide open-access of ROSALIND, our discovery and collaboration platform, for fellow scientists who wish to join a community effort to share, discover and accelerate our collective understanding of Coronavirus.
About the Coronavirus Community
The purpose of this Community is to unite Scientists around the globe with a singular focus of accelerating the understanding of the Coronavirus and its biological outcomes. By joining this Community, participating Scientists will be provided with free Scientist access to ROSALIND and the ability to rapidly process datasets and share results with fellow collaborators within the Community.
- Community Access: Scientist-level provided (subscription fee waived for all community usage).
- Discovery: Explore any Transcriptomic or Epigenetic dataset, including RNA-seq, miRNA-seq, ATAC-seq, ChIP-seq and NanoString.
- Collaboration: Consistent, real-time collaboration with activity logs. The Coronavirus Community Space will provide open-access to both community-contributed and public datasets.
- Public Data: Automated Import and Processing of NCBI | Short Read Archive (SRA) BioProjects.
- Cloud-based: Accessible anywhere on the planet.
- Register: Upon joining the Community, you'll be invited to register on ROSALIND. Enter your institution email and setup your account.
- Accept the Community Space Invite: Your account will be provisioned with Community Scientist Access and an invite to the Coronavirus Community Space will be sent to you.
- Access Community Datasets: Look for "Spaces" after logging into your account to access the Community datasets.
- Learn More: For more information on ROSALIND check out the links at the bottom of this post.
Updated: Jan 26, 2020 6:47 pm ------
To facilitate understanding of Coronavirus, the following NCBI public data experiments have now already been added to the Coronavirus Community Space:
- Transcriptomic analysis of MERS-CoV infected Calu-3 cell with or without AM580 treatment (PRJNA506733)
- Relative timing of type I interferon response and virus replication determines disease outcome during MERS-CoV infection (PRJNA545350)
- Transcriptome profiling of influenza virus-infected human bronchial epithelial cells (PRJNA305099)
- SARS-CoV-Encoded Small RNAs Contribute to Infection-Associated Lung Pathology (PRJNA355238)
- Transcriptomic Analysis Of circRNAs-miRNAs-mRNAs upon Middle East Respiratory Syndrome Coronavirus -MERS-CoV- infection (PRJNA580021)
- Transcriptomic analysis of the Novel Middle East Respiratory Syndrome Coronavirus-MERS-CoV (PRJNA233943)
- Additional experiments will be added as identified by Community members
Please share this post with any others who may be interested in helping this cause.
Select screenshots from current experiments in the Coronavirus Community Space:
Updated: March 30, 2020 ------
Support for the SARS-CoV-2 Genome is in development now and will be released next week. We will also be posting several new public datasets from multiple locations across the globe. It's imperative that we join forces globally in open data sharing on COVID-19 so that we may track the strains, measure the progression of the disease and assess the efficacy of treatments.
If you have COVID-19 datasets, upload them today for free processing and interpretation.