Impact of CNAs on oncogenic pathways. CNA patterns and corresponding RNA expression levels of genes in AR, Cell cycle, RAS/RAF, MYC, Notch and WNT pathways are displayed. Red indicates oncogenes; blue indicates tumor suppressor genes. The corresponding RNA expression predicted by DESeq2 were drawn at the right in the order of normal samples, tumors with without CNA changes, the tumors with genes amplifications and the tumors with genes deletions. Asterisk indicates significant (P < 0.05).
Impact of CNAs on oncogenic pathways. CNA patterns and corresponding RNA expression levels of genes in Hippo, DNA repair gene, PI3K/AKT, Nrf2, TGFbeta, and TP53 pathways.
The waterfall plot of selected SMGs of specific categories based on non-synonymous coding mutations for CPGEA. The left panel showed the bar chart of each selected genes’ mutation frequency in different cohorts. The middle part is the waterfall of CPGEA. And right panel is the SMGs reported in the literation and predicted in CPGEA. The dendrogram of two important clinical features (pretreatment and metastasis status).
The waterfall plot of selected SMGs of specific categories based on non-synonymous coding mutations for TCGA cohorts processed by CPGEA pipeline.
The waterfall plot of selected SMGs of specific categories based on non-synonymous coding mutations for SU2C cohorts.