Fig. 6

Role of histone modifications in the regulation of the expression of protein-coding genes in the absence of DNA methylation. a Distribution of epigenetic mark signals across the body (± 1 kb) of all protein-coding genes in the wild type and mddcc. Genes were sorted based on levels of expression, and genes with no detectable expression were sorted by H3K27me3 and H3K9me2 levels in the wild type (left panel) and mddcc (right panel), respectively. b Expression levels of genes with stable/unchanged histone modification patterns between the wild type and mddcc. Gene expression was standardized with TMM. c Dot plot depicting transcriptional changes in genes marked by stable H3K4me3 associated with or not associated with differentially methylated regions (DMR) in mddcc and the wild type. d Numbers and percentages of differentially expressed genes in mddcc compared with the wild type. e Expression fold change of genes with gain/increase and loss/decrease of active marks in mddcc. f Correlations of log2-fold change in gene expression and histone marks between mddcc and the wild type