Figure 6.

Gene expression and sequence property of PMD and non-PMD in breast cells. (A) Percentage of genes that are transcriptionally repressed or activated in oncogenesis as a function of PMD length in the brca_t5-brca_n5 sample pair. The comparisons in coad_t2-coad_n2 and ucec_t5-ucec_n5 sample pairs are shown in Fig. S6. (B) The local correlations of DNA methylation in PMD, non-PMD, and PMD-like genomic regions in breast cells. (C), Plot of a representative region showing the relationship between CpG density, methylation levels before and after oncogenesis, PMD, and repressed and activated genes in oncogenesis. In (A), (B), and (C), the data from brca cells were used. To see this figure in color, go online.