Figure 4.

Retinoblastoma samples show differential patterns of gene expression by anaplastic grade. A: Hierarchical clustering using genes with |log₂FC| > 0.6 and P < 0.05 in severe anaplasia versus mild and moderate anaplasia. B: Volcano plot showing differential expression of genes in severe anaplasia relative to mild and moderate anaplasia (plot of −log₁₀ of the P value [adjusted for multiple comparisons (p_adj)] and log₂FC). C and D: Venn diagrams showing the number of highly up-regulated (C) and highly down-regulated (D) genes (P < 0.05, |log₂FC| > 1) shared in all retinoblastoma (RB) versus normal retina (NR) (blue), mild-moderate anaplasia versus NR (gray), and severe versus mild-moderate anaplasia (purple). E and F: Plots of the normalized enrichment score (NES) of gene sets enriched in comparisons of mild-moderate anaplasia versus NR (E) and severe versus mild-moderate anaplasia (F).