Fig. 6: The impact of PDGFRAMut and KITMut on downstream pathways.
A Comparison of mutational frequencies of PDGFRA (left) and KIT (right) across the proteomic subgroups. B Forest plot indicated 95% CI of hazard ratio of KIT and PDGFRA in both TCGA and FUDAN cohort. C, D Comparison of PDGRA (C), KIT (D) protein expression between mutant and WT groups (left), and among the proteomic subgroups (right) (two-sided Wilcoxon test). The Kaplan-Meier curves for OS based on protein expression of PDGFRA (C), KIT (D) (log-rank test). For C and D, analyzed samples: n = 187. E Scatter plot indicated the correlation between the protein expression of PDGFRA (up) and KIT (down) and their kinase activities. F The heatmap depicted the phosphosites associated with the PDGFRA and KIT. The Spearman’s correlation between PDGFRA’s and KIT’s protein expression and phosphosites’ abundance were displayed on the right panel. G The volcano plot indicated the phosphosites predictive OS (Cox PH model calculated Two-sided Cox p values). The boxplot showed the distribution of phosphosite FOXO3/S294 among samples (two-sided Wilcoxon test). H Scatter plots indicated FOXO3’s TF activity associated with the abundance of phosphosite FOXO3/S294 (red) but not with FOXO3’s protein expression (blue). I Kaplan–Meier curves for OS based on abundance of FOXO3/S294 (log-rank test, analyzed samples: n = 91). J The heatmap indicated the cascading patterns of FOXO3 (TF), and the target genes of FOXO3 across proteomic subtypes. K Scatter plots indicated the correlation between the mRNA expression of PLAU (top) and VEGFA (bottom) and their cognate proteins’ expression. L Boxplots showed the protein expression of PLAU (left) and VEGFA (right) among samples. M The bar plot indicated the comparison of MVD scores across the samples. For L and M, p value: two-sided Wilcoxon test; analyzed samples: L: n = 38; M: n = 43. N The systematic diagram summarizing cascading regulatory role of PDGFRA-mutant, KIT-mutant on neovascularization through FOXO3. For scatter plots in E, F, H, K, P value: Spearman-rank correlation. For boxplots in C, D, G, L, the middle bar represents the median, the box represents the interquartile range; bars extend to 1.5× the interquartile range. Source data are provided as Source Data files.
