Figure 5
RNA sequencing cohort and differential expression analysis between clear cell renal cell carcinoma (ccRCC) and papillary RCC (pRCC) with classification according to gene signatures. Track (A) shows a heatmap of Z-scores of variance stabilized values with unsupervised clustering of the top 100 transcripts based on the smallest adjusted p-value and colored according to Z-scores. Tracks (B) shows gene set enrichments based on sets (y-axis) from the molecular signatures database hallmarks and Reactome pathways, with the normalized enrichment score (NES) on the x-axis. Bar charts are visualized with ccRCC taken as reference (N = 24) (positive NES equals expression up in ccRCC and down in pRCC (N = 4)). Track (C) shows unsupervised clustering on the rows (patients) with color coding indicating the RCC subtype (purple for ccRCC and pink for pRCC) and colored according to Z-scores. The x-axis has been cut into several gene groups related to angiogenesis, invasion, Ca2+-flux and T-effector cells, as defined by D’Costa et al.25 and their stated order.
