I have a bunch of clusters of genes , 128 clusters to be precise and each cluster contains a bunch of genes . Dataset is case and control dataset with two classes that is diseased and non-diseased, autism disease to be specific. There is a well-defined list of genes associated with the autism and is compiled and scored with different categories at SFARI.
My First Question is that how can I check the biological significance of those clusters, that is how to test if I did not get those clusters by chance, what is the procedure to test the significance of those clusters, is there some tool or R package for this? My Second Question is that how can I check the biological significance of those genes clusters, is there some tool or R package for this also?
It would be pretty helpful if somebody could guide or suggest me relevant steps that I should do or that one should do based on literature.