Entering edit mode
8.3 years ago
jack ▴ 960
I have don gene differential expression analysis of RNA-seq data using Deseq2. it's report the list of the differentially expressed genes with Fold change, pvalue and adjasuted P-value.
I know that, I should stick with adjusted P-value. but:
- What is the good and trust able threshold for P-value?
- Why just looking at fold change can be misleading?
thanks. but you don't think 0.1 is not very low threshould ? you mean 0.01 ?
I meant 0.1, 0.01 would be overly restrictive for an adjusted p-value. Of course, the threshold you'd actually use is dependent on what you're doing downstream. If you're going to base an expensive clinical trial on the results, then you'd use a more restrictive threshold.