Fig. 1

H3 lysine 79 methylation 2/3 (H3K79me2/3) marks a subset of enhancers. a Correlational analysis between H3K79me2 chromatin immunoprecipitation-sequencing (ChIP-seq) and H3K79me3 ChIP-seq reads in SEM cells at H3K79me2/3 enhancer elements (KEEs) (purple) and non-KEEs (gray), based on one biological replicate. b Proportion of predicted enhancers, which are KEEs (purple) or non-KEEs (gray) in different cell types, based on ChromHMM analysis. c Genomic location, either intragenic (orange) or intergenic (gray), of KEEs in different cell types. d Gene expression (log FPKM (fragments per kilobase of transcript, per million) values) of KEE genes (purple) and non-KEE genes (gray) in different cell types. Most data were based upon one replicate; SEM and THP1 data were based on three replicates. ****p < 0.0001, using a Mann–Whitney U test. Box plots show interquartile range; center line represents the median value. e Capture-C, ChIP-seq, and assay for transposase-accessible chromatin using sequencing (ATAC-seq) at ARID1B performed in SEM cells. Blue boxes indicate KEE clusters 1 and 2. Red bars indicate location of Capture-C probes. Capture-C track is mean of three biological replicates; ATAC-seq is a representative track of five biological replicates. f, g Overlay of Capture-C with H3K79me2 and H3 lysine 27 acetylation (H3K27ac) ChIP-seq at ARID1B and LMO4 in SEM and THP1 cells. Gray bars represent location of Capture-C probe, ±1 kb exclusion zone. Shaded area around Capture-C signal represents 1 s.d. See also Supplementary Fig. 1