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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

Extended Data Fig. 7. RNA-chromatin interactions on cell type-specific enhancers.

Extended Data Fig. 7

a,b, Scatterplots of foreground (a) and background (b) of GRID-seq signals between MDA-MB-231 and MM.1S cells in the 1 Kb-binned human genome. c,d, Violin plots showing co-enrichment of specific RNA-chromatin interactions and key chromatin features in MDA-MB-231 cells (c) and MM.1S (d). Left: Enrichment of mean chromatin interaction signals of GRID-seq RNA density after background correction relative to ChIP-seq peaks of RNA Pol II, H3K4me1, H3K4me3, H3K27ac and H3K27me3. Right: Background signals. RPK: reads per Kb. Bars represent the range from 25 to 75 percentiles. e,f, Quantification of RNA-chromatin interaction levels on enhancers in the same cell type (orange) relative to specific enhancers in a different cell type (grey). g, Correlation of RNA-chromatin interaction levels on promoters with gene expression in MDA-MB-231 and MM.1S cells.