I have RNA-seq data across different tissues, and I want to identify genes that are uniquely expressed in a tissue of interest. Some of these data were generated in the lab and sequenced in the same lane, and other data comes from public databases. Can I use DESeq2 normalization in this case? Is it appropriate to use sva in this case as done in:
8.1 Using SVA with DESeq2
Thank you so much for your help!