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Fig. 6 | Genome Medicine

Fig. 6

From: A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles

Fig. 6

Plots of associations between overall survival outcome and subtypes defined by different methods grouped by methods (a) or by cancer types (b). The p values above are the difference between DeClust and other methods according to the two-sided paired t test. c Heat map of the pathway activity in the immune, stromal, and cancer compartment across 13 TCGA datasets based on the expression profiles of these compartments as estimated by DeClust. The pathway activity score was calculated by single-sample gene set enrichment analysis (ssGSEA) [24, 47] and then row-wise scaled for display. We considered 50 cancer Hallmark pathways annotated in MsigDB by Broad Institute [48]

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