I had a question concerning the "core analysis" menu of IPA
My RNA-Seq data file is a DESeq2 output file with 26967 genes. In the core analysis of IPA, I only want to analyze differentially expressed genes with a log2FC > 2 for the up-regulated (754 genes) and with a log2FC < 2 for the down-regulated (89 genes). Surprinsingly, when I apply these two cutoffs in the IPA menu (see image), the number of selected genes corresponds only to the up-regulated genes minus 1 (753), the down regulated genes are not taking into account (0 down).
I might do something wrong, could you tell me what? Thanks