St. Jude RNA-seq data

[envest]

We have 122 RNA-seq samples from St. Jude Cloud. They were identified using this search on 2022-06-16:

https://platform.stjude.cloud/data/diseases/tumor?file_type=FEATURE_COUNTS&seq_type=RNA-SEQ&sample_type=diagnosis&search=MBL&selected_tags=AMBLNWSG3,AMBLNWSG4,DMBLSHH,AMBL,AMBLSHH,MBL,MBLG3,MBLG4,MBLSHH,MBLWNT

To get access, I had to create a free DNAnexus account. It's unclear if I am able to share this data publicly. If yes, we'll share in a way that make public access easy. If not, we'll respect that condition and describe how we got it.

One option for keeping the data around but not sharing it would be a private S3 bucket.

Otherwise we would share it on something like zenodo or figshare with the other data we share.

[envest]

We cannot share the data ourselves, but we can generate a link to "Share Selection" so other people can can get the exact data selection with through their own St. Jude Cloud / DNAnexus account.

Hello Steven,

Apologies for the lengthy delay in getting back to you about this. As far as sharing goes, we don't allow for making the data available on another platform or via a method outside of St. Jude Cloud. However, if you have an idea or proposal for how we can collaborate and help make this experience better through Genomics Platform, we could be open to doing so.

Currently, the best way to handle this would be to generate a link using the "Share Selection" button from the data browser. Other users will only need to follow that and everything will be selected, then they can easily sign-in or sign-up and create a project with the exact data set.

Hope that helps, sorry again for the slow response and please let me know if there is anything else we can do to help.

Best,

Brian

^ March 7, 2023 email to [email protected] from Brian from St. Jude Cloud [email protected]