Yes! Pluto automatically prepares submissions to public data repositories for you
Many scientific journals require that you submit your data to the NCBI Gene Expression Omnibus (GEO) and Sequence Read Archive (SRA) prior to publication. Pulling the data together for one of these submissions can be a tedious process to tackle on your own, but Pluto makes it easy! Scroll to the bottom of this article to see live examples of studies that have been submitted to GEO from Pluto.
What will I need to prepare?
Because the raw and processed data is already in Pluto, they can be transferred directly to GEO and there are no additional files that you need to download or prepare. In the submission form, you will be asked to provide additional information not captured in Pluto, including:
- Authors / contributors
- Experimental protocol
Let's get started! There are two paths to submit data to GEO:
- Start a submission via an experiment in Pluto
- Start a submission via the GEO Submissions page - this can be a better option if you plan to submit multiple submissions
Submitting data to GEO from a Pluto experiment
When you are ready to initiate a new submission, first navigate to the Workflow tab of the experiment that you would like to submit:
Scroll down on the page to the Other connectors section to start a new draft GEO submission:
You'll be asked to answer a few simple questions about your experiment, including when you'd like the submission to become public, and who you'd like to be listed as co-authors on the submission.
Note: you have full control over which data is submitted and when it will be made publicly available. You will be prompted to approve the final submission before any files are transferred. You can also request reviewer tokens, and request that the GEO record be transferred to your PI after submission.
Pluto will handle preparing the submission and any back-and-forth communication with GEO. Once approved by GEO, you'll receive an email from Pluto notifying you that your submission has been approved!
Submitting data to GEO from the GEO Submissions page
When you are ready to initiate a new submission, you can also do so from the GEO Submission page. Navigate to the GEO Submissions page under the Publishing tab.
Use the form on this page to enter the information needed for submission. For convenience, you can view this same form in fullscreen mode here.
Examples
See a GEO submission prepared by Pluto here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE211636
Additional examples: