Fig. 3

Genome-wide analysis of DNA methylation in hematopoietic cells profiled using WGBS. a Overview of cell types and sample numbers in the BLUEPRINT WGBS dataset (August 2016 release), which was analyzed with RnBeads. b Distribution of DNA methylation levels for different types of genomic region sets. c t-SNE dimension reduction based on Euclidean distances of mean DNA methylation in putative regulatory regions. Cell types are color-coded as in panel a. d Density scatterplots showing differential DNA methylation levels between monocytes (N = 20) and neutrophils (N = 10). Point density is indicated by blue shading. The 0.1% of regions in the most sparsely populated areas of the plot are shown as individual points. The 500 highest-ranking hypomethylated regions in monocytes compared to neutrophils are indicated in purple. e Log-odds ratios of the LOLA enrichment analysis for the 500 regions highlighted in panel d. The top 20 most enriched categories of the LOLA Core and Extended databases are shown. Differently colored bars represent different types of genomic region data (e.g., peaks for histone marks or transcription factor binding sites). Mf, macrophage; GM, lymphoblastoid cell; Mo, monocyte; REMC, Roadmap Epigenomics Mapping Consortium