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. Author manuscript; available in PMC: 2018 May 15.
Published in final edited form as: Nat Biotechnol. 2017 Sep 18;35(10):940–950. doi: 10.1038/nbt.3968

Fig. 4. Preferential RNA decoration on super-enhancers in MM.1S cell.

Fig. 4

a, Super-enhancers in relationship to RNA-chromatin interaction levels. 10,567 active enhancers marked by H3K27ac in MM.1S cells were ranked by RNA interaction levels. Each red bar on top represents a super-enhancer. Red curve: The accumulative curve of rank-ordered RNA-chromatin interactions; Grey dashed line: Random distribution. b, Density distribution of chromatin-enriched RNAs at super-enhancers (SE, red) and typical enhancers (TE, blue). c, Left: Rank-ordered RNA-chromatin interaction levels on all active enhancers. Right: The top 10% and bottom 10% enhancers with the most and least RNA interactions, respectively, selected for functional analysis. d, Gene expression associated with top 10% enhancers (orange box) and bottom 10% enhancers (green box). e, Accumulative curves of expression changes of genes associated with top 10% and bottom 10% enhancers in response to JQ1 treatment in MM.1S cell. Statistical significance of comparison was determined by Student’s t-test in panel b, d and e with degrees of freedom of 631.5, 1955.8 and 1926.4, respectively. f, Meta-analysis of chromatin-enriched RNAs on H3K27ac-positive enhancers detected in Drosophila S2 cells (red) versus all enhancers scored positively in Drosophila embryos from the REDfly database (blue) or random genomic fragments (black).