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Fig. 1 | Clinical Epigenetics

Fig. 1

From: Genome-wide analysis of DNA methylation and gene expression defines molecular characteristics of Crohn’s disease-associated fibrosis

Fig. 1

Genome-wide differentially methylated regions (DMRs) in fibrotic human intestinal fibroblasts (HIF). a Heatmap of read counts at all sharp yes/no DMRs. Square root transformed read counts were plotted for each detected DMR. Higher read counts (red) indicate stronger evidence for the presence of methylation. Lower and zero read counts (blue) indicate absence of methylation. Each row represents one DMR. Read counts have been normalized to the number of 50-bp windows in each DMR. b Karyogram showing genome-wide coverage of differentially methylated regions (DMRs). Hypermethylated (red) and hypomethylated (blue) regions in Crohn’s disease HIF when compared to normal controls are shown. Black lines above each chromosome represent regions covered by sequencing reads to show genome-wide coverage. c The proportion of DMRs that overlap with promoters, gene 3′ ends, exons, introns, and intergenic regions is shown. RefSeq genes were used to define transcription units. d The number of sharp yes/no DNA methylated loci in CpG islands versus CpG shores (2000-bp flanking CpG islands), shelves (2000-bp regions flanking shores), and open sea regions (loci greater than 4 kb from CpG islands) is shown

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