Relationship between the expression of immune-related genes and burdens of somatic mutation. Relationship between the expression of immune-related genes.

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Relationship between the expression of immune-related genes and burdens of somatic mutation. Relationship between the expression of immune-related genes and burdens of somatic mutation. A, Scatter plot showing CYT (a geometric mean of GZMA and PRF1 expression; x-axis in log2 scale) and the number of somatic mutations (y-axis; log2 scale). Correlation coefficient (ρ = 0.19) and a trendline are indicated. B and C, Two scatter plots show correlation of tumor purity with CYT and mutation burdens (ρ = −0.70 and −0.20, respectively). Significance was calculated using R software. D, Scatter plot of the correlation coefficients between gene expression and mutation burdens calculated with or without controlling for the tumor purity (y- and x-axes, respectively). Mitochondria: 175 genes, red dots; immune: 1,140 genes, blue dots (as in Fig. 1B). E, Purity-adjusted (yellow) and -unadjusted (green) correlations for the expression of immune marker genes (GZMA, PRF1, PDCD1, CD274, CTLA4, and CD8A) as well as APOBEC3B and MLH1 with the burdens of somatic mutation. MLH1: the correlation was measured for three tumor types of COAD, STAD, and UCEC. Je-Keun Rhee et al. Cancer Immunol Res 2018;6:87-97 ©2018 by American Association for Cancer Research