Hi I have raw read counts of two targeted rnaseq platforms, one targets 2256 probes and the other 1450 probes. They have 700 common genes in common. The chemistry of platforms is the same. The correlation of samples for 700 common genes is 80 percent. The same patients have been used for both platforms. I want to merge two platforms to have 3700 genes together. Could I simply take mean of raw counts of 700 common genes? Any suggestion please Thank you
Probably important to state what the aim of your downstream analysis is.
Thank you, I found very similar differentially expressed genes in both platforms and read distribution for common differentially expressed genes also is the same. So, I thought to have a bigger datasets. I heard for each patient we have read counts of two platform. I guess it is unnecessary but I don't know how to combine these two data in a way not to loss information. My main aim would be making a predictive model to find prognostic genes from responder and non responder patients