Other databases for deposition of scRNA-seq data than NCBI GEO?
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EBI-ENA: https://www.ebi.ac.uk/ena/browser/submit
Thanks, aren't they synced? So if it is deposited at ENA it will appear at NCIB GEO / SRA?
You don't want your data to appear in GEO? There is also ArrayExpress (not sure if that is linked to NCBI as well): https://www.ebi.ac.uk/arrayexpress/help/single-cell_submission_guide.html
Sorry, my question is badly worded. I am actually SEARCHING for scRNA-seq datasets and want to make sure I catch all of them :) So where -- in addition to NCBI GEO -- do I have to search?
I basically need raw data.
GEO/SRA should have you covered. There is variability regarding raw data for scRNAseq depending on technology used. Always look under the
Data Accesstab in SRA records for files uploaded by submitters.There are also databases like: https://panglaodb.se/ and https://bioinfo.uth.edu/scrnaseqdb/. Not sure if they provide access to raw data or if that data is also in SRA.
Thanks! I already found them. But they also just link to GEO/SRA as far as I can tell.