I downloaded proteomic data from CPTAC, but it is already in log2FC form, [while the spectral count lacks the sample mapping]. Now, I want to determine which genes are statistically significant, what test can be applied?
As, logically the ratio of protein expression between Tumor and normal should be 0 [log2(Tum/Norm = 1) = 0], can I use one sample t test (with mu = 0) or Wilcoxon Signed Rank test (gene expression is not gaussian)? or any other method?
For instance, I created a random distribution following min/max of gene expression and then compare the actual gene expression against this random distribution? Is it logical?
The p-values of 1sample T.test, 1 sample Wilcoxon or Wilcoxon with random distribution are in close range (0.89, 0.90, and 0.202)
Any hint in this regard is highly appreciated. ,