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Fig. 5 | Genome Medicine

Fig. 5

From: Comprehensive genomic and tumour immune profiling reveals potential therapeutic targets in malignant pleural mesothelioma

Fig. 5

The tumour micro-environment of MPM. Deconvolution of immune cells in the tumour micro-environment (TME) for A pleura samples of TCGA and B pleura and effusion sample of Creaney et al. Samples are on x-axis and the estimated proportion of immune cells is on the y-axis. Sample information and CIBERSORT estimated p-value for enrichment of immune cells per sample are shown in the tiles above the plot. RNA-seq data for C TCGA and D Creaney et al. showing the log transformed TPM +1 gene expression values for CCL2, MMP2, MMP14 and TGFB1. E Correlation of log transformed TPM+1 gene expression values of CCL2, MMP2, MMP14 and TGFB1 and the proportion of immune cells measured with CIBERSORT. The correlation was estimated using Pearson Correlation as indicated in the scale bar. Values are shown for 66 samples (53 TCGA and 13 Creaney et al.) which have significant immune cell proportions estimated by CIBERSORT (p-value < 0.05). Comparisons that are significantly correlated (p-value < 0.001) with a positive correlation are displayed in green pie charts and negative correlation are displayed in red pie charts. Blank panels indicate a non-significant correlation (p-value > = 0.001). F Kaplan-Meier plot of TCGA samples with TGFB1 expression divided by lower, middle and upper tertiles (p value from log rank test). G Kaplan-Meier plot of Creaney et al. samples with TGFB1 expression divided by lower, middle and upper tertiles (p value from log rank test)

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