Scheme of TRMs and core modules identification. The first step is to construct the co-expression GO network. PPIs are assigned to each GO gene set to build the GO network. Expression profiles are used to calculate the co-expression level for two genes as weight of the edge for GO network. Once the co-expression GO network was built, we divided the network into several functional modules by the weighted GN algorithm and the whole modules by p-SAGE based on expression differential level to obtain the TRMs. Next, we screened the TRM to search the MM (Fisher’s exact test, P ≤ 0.05) and defined them as core modules.