search

eliah-o / inspiration4-omics

Scripts run during processing and analysis of Inspiration4 omics data.
6 stars 5 forks source link

RNAseq data access #5

Open ChrisSteel-bio opened 5 days ago

ChrisSteel-bio commented 5 days ago

Dear Authors,

Would it be possible to gain access to the bulk-rnaseq generated in this study? The publication mentions the data are publicly available, yet the access is restricted on the NASA site. Access to processed count tables would be even better.

Many thanks, Chris

eliah-o commented 5 days ago

Hi Chris,

We passed along the processed data files that we had to the OSDR team. It looks like some of them are available on OSDR, for example the processed ONT direct RNA-seq data:

https://osdr.nasa.gov/bio/repo/data/studies/OSD-569

Nanopore long read RNA-Seq > Processed Data Files > GLDS-561_nanoporeRNAseq_Direct_RNA_seq_Gene_Expression_Processed.xlsx

Is there a specific one you're looking for?

Raw data will require a request to NASA's OSDR team similar to the process that dbGaP uses, but the intention is to be as open with the data as possible. I recommend proceeding with a request if you would like analyze the raw data.

Processed data is also available for visualization here: https://soma.weill.cornell.edu/apps/SOMA_Browser/

Hope this helps!