Figure 2.

Enrichment of PcG marks and HCP promotors in the group of genes methylated in PCNSL but unmethylated in non-neoplastic hematopoietic tissues. Bar plot of the different DNA methylation subsets showing percentage and absolute numbers (numbers below each diagram) of (A) genes containing PcG marks in ESCs and (B) genes with one, two or three PcG marks, respectively. The meP/umC group was significantly enriched for PcG target genes (p < 0.0001; Fisher's exact test) and genes containing all three PcG marks (p < 0.0001). "array" reflects the distribution of the respective genes on the GoldenGate Cancer Panel I array. (C) Comparison of the content of EED, SUZ12 and 3 mK27-H3 target genes in the different groups and the GoldenGate array. The content of genes containing the individual marks is comparable in PCNSL. (D) Bar plot showing the percentage of promoter subtypes according to their CpG content in the different DNA methylation subsets. Genes de novo methylated in PCNSL (meP/umC) predominantly had promoters with high CpG content (p < 0.0001). In contrast, genes having promoters with low CpG content were enriched in the group showing high methylation in PCNSL and normal controls (meL/meC; p < 0.0001).