Extended Data Fig. 2: E/SEs identified by ROSE are enriched in H3K4me1 and recapitulate the E/SE landscape of primary large B cell lymphomas.

a. Heatmaps of the indicated histone mark signal at SEs, Es, and Promoter regions, defined as described in Methods. Shown are the 50 kb regions upstream and downstream of the H3K27Ac peak centre, set as 0. The colour scale indicates the normalized z score. Data are shown for GC B cells and include all “shared” E/SEs found significantly hypermutated in DLBCL (Fig. 1b, d) as well as promoter regions. b. ChIP–seq density profiles of H3K4me1, H3K4me3, H3K27Ac and H3K27me3 at SEs, Es, and Promoter regions. The plots indicate normalized mean ChIP–seq density, relative to the H3K27Ac peak summit, set as 0. For the SEs, data are provided overall (top left) and separately for intragenic SEs, intergenic SEs, and the set of recurrently hypermutated “shared” SEs presented in Supplementary Table 2 (HyperM SE)(bottom). c. Left panel: number of H3K27Ac peaks nominated as SEs in the GC B cell pool CB4 (n = 655) and also assigned to SEs (dark red) or classic Es (light red) in primary large B cell lymphoma cases. Data are provided separately for each of the 7 samples, and GC SEs not decorated by H3K27Ac in the primary samples are coloured in grey. The reverse analysis is shown in the right panel, as the relative percentage of DLBCL-specific active SEs also found in normal GC B cells (dark red if active SEs, light red if typical Es) or not decorated by H3K27Ac in normal GC B cells (grey shade, representing ‘de novo’ SEs).