It's common to talk about expression similarity with clustering, correlation coefficients, etc. I want to do something slightly different. I want to argue that, biologically, my two samples are very different. I have microarray expression profiles from both. I have shown:
1) Negative Pearson/Spearmann correlations for genome-wide comparisons. 2) The genes differentially expressed in one sample aren't differentially expressed in the other.
This doesn't seem like it's enough. Any suggestions?