I just ran across an interesting paper in Nature on the genetic basis of tumor susceptibility and skin inflammation. The authors use backcrossed mice to identify eQTLs and mapped these onto a network for co-expression based on various skin expression profiles. The expression profiles highlighted skin specific networks such as keratins. Their analysis suggests to me that using a generic co-expression network would not have given them the results that a "local" co-expression network which is based on skin expression which is the system they are interested in. Overall the paper presents an interesting approach for applying networks to eQTL analysis