Hello, I am currently analysing bulk RNA-seq brain data from ROSMAP (syn3388564) separately by library construction method (i.e. "polyAselection" and "rRNAdepletion"). I have noted that some samples from the "data contribution batch 3" are labelled with a _"specimenID = RISK_XXX"_ ("XXX" equating to 2-3 digits) or _"specimenID = RISK_XXX_redo"_. I have not been able to find the corresponding BAM files for none of these samples within the DLPFC (syn4164376) and DLPFC.AC.PCC (syn21188662) projects. Can anyone educate me on the origin/characteristics of these samples labelled as "RISK_XXX" and where I can find their corresponding .bam files? Thanks in advance!

Created by Sonia García Ruiz sonia.garciaruiz
Hello @sonia.garciaruiz, Thanks for your question. Just to clarify, are you searching for these BAM files to use for raw reads, or as an intermediate analysis file? If you are searching for raw reads for those samples, you can find them here in fastq format: syn21589959. I don't believe that aligned bam files are available for this batch, however I would also like to point you to the [RNASeq Harmonization Study](https://adknowledgeportal.synapse.org/Explore/Studies/DetailsPage/StudyDetails?Study=syn21241740), which contains raw gene counts generated across cohorts using a common data processing pipeline. The Rosmap batch3 counts can be found [here](https://www.synapse.org/Synapse:syn22300974). Best, Will

ROSMAP - Unable to find the BAM files corresponding to entityID = "RISK_XXX" and "RISK_XXX_redo" page is loading…