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Fig. 2 | Genome Biology

Fig. 2

From: Cancer expression quantitative trait loci (eQTLs) can be determined from heterogeneous tumor gene expression data by modeling variation in tumor purity

Fig. 2

Estimates of tumor purity in TCGA samples vary substantially within and between cancer types. a Boxplot of tumor purity estimates from the consensus purity estimation (CPE) [15] method for 21 solid tumor types in TCGA. Breast cancer is highlighted in red. b Histogram (blue) and density plot (red) of tumor purity for the TCGA breast cancer samples (n = 1063) estimated using CPE. c Histogram of P values for the association of expression and tumor purity; 76.5% of genes’ expression were significantly correlated with tumor purity (FDR < 0.05). Corresponding Pearson’s correlation values of gene expression and CPE estimates of tumor purity in TCGA breast tumors are shown in the inset. The area outside the red dashed lines represents significant correlations (FDR < 0.05)

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