We did whole transcriptome sequencing (RNAseq) of 6 samples (3 normal vs. 3 tumor) and ended with 270 differentially expressed genes : 200 up regulated and 70 down regulated. I want to use ToppGene for Candidate gene prioritization of our 270 genes, I know that sounds stupid but I couldn't find any proper manual of toppgene written in plain English and I'm very confused on how to use this software.
- Here is the link: https://toppgene.cchmc.org/prioritization.jsp
It has 2 blanks to fill, "training gene set" and "test gene set" and don't understand what should I fill out in there. Let's say, if I need to do Candidate gene prioritization of our up regulated gene set (200) what should go in training and test gene set?