MEMo ( Mutually Exclusive Modules in Cancer)is a method for identifying mutually exclusive driver networks in cancer. The method identifies networks defined by three properties: first, member genes are recurrently altered via somatic mutation or copy number changes; second, member genes are likely to participate in the same biological pathway or process, as determined from prior pathway and network knowledge; and third, genomic events within the network exhibit a statistically significant level of mutual exclusivity. Applied to genomic data from the Cancer Genome Atlas (TCGA), the method identifies all known altered pathways in glioblastoma and highlights the striking mutual exclusivity of genomic alterations in the PI3K, P53 and RB pathways. In serous ovarian cancer, we make the novel observation that inactivation of BRCA1 and BRCA2 is mutually exclusive of CCNE1 amplification and RB1 inactivation, suggesting alternative causes of genomic instability in this cancer type.
Computational Biology Center @ Memorial Sloan Kettering Cancer Center
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Curr Protoc Bioinformatics. 2013 Mar;Chapter 8:Unit 8.17. doi: 10.1002/0471250953.bi0817s41.
Using MEMo to discover mutual exclusivity modules in cancer.
Ciriello G1, Cerami E, Aksoy BA, Sander C, Schultz N.