Breast cancer metastasis associated modules identified by RegMOD. The square nodes refer to known breast cancer related genes. (A) and (D) are up-regulated modules BCUM1 and BCUM2 which are related to cell cycle and apoptosis respectively in red color. (B) and (E) are down-regulated modules BCDM1 and BCDM2 which are related to signaling transduction and antigen presentation respectively. (C) and (F) chart the box-plot of the similarity among genes and SNR values of genes involved in active modules found by different methods. The distributions of breast cancer genes on different gene ranking lists are shown in (G). (H) charts the comparison of gene sets' coverage of known breast cancer associated genes using different methods with the significant p-values calculated by hypergeometric distribution.