I currently work on regulatory network building based on Hi-C and I would like to validate them with a co-expression based approach. Briefly, I have clusters with several enhancers and promoters which are linked each other (the cluster size is moderate, between 2 and 20 elements in average) and I would like to show similar patterns in expression for the genes of the same cluster. I looked at the co-expression through expression correlation for different replicates, but I am not sure to integrate this to my existing networks. I wonder if simple methods could be used to illuminate the expression behaviour of my genes in the same cluster without proceed to resampling methods.
Any insights are welcome.