Hi, Was wondering if anyone has any advice on using publicly available normal matches to use in RNAseq analysis with our tumor samples. We have liver cancer tumors but lack normal tissue for some of the cases. So can we perform RNAseq analysis using liver normal RNAseq data from TCGA with our tumor data? 25 tumor-25 normal (different normal patients for liver from TCGA)
Does this pose a problem of any kind in pairwise analysis? They will not be from the same patient as ours obviously but still normal and molecular signatures for normal should be pretty much same ? Is there anything I will need to pay close attention to?
I have not done this type of analysis before and so please pardon my ignorance here!
Thankyou for your time !