I would like to compare the correlation of a set of genes to a certain gene of interest (GOI) and compare these between different gene sets. I know from before that these genes have correlation to the GOI in protein assays, but I would like to use the TCGA data to confirm this in multiple tumors. I would like to compare the amount of correlation between tissues and in which tissues there is highest correlation. Also I would like to say if those genes individually is generally correlated to the gene of interest.
Is there some way graphically I could illustrate this or look at the correlation data between different tissues? Since it is a big amount of data when I do correlations between the genes it easily gets hard to overview. I also think if I should compare tumor data with the normal tissue data that exists in TCGA? Someone done comparisons between tissues have any suggestions or anyone have any ideas how I should construct this?