Fig. 1

HDACi treatment induces site-specific chromatin remodeling in K562 cells. a MA plot of fold-change in K562 chromatin accessibility (DNase-seq signal) over average signal found at each site following 72-h 0.5 mM NaBut treatment. Red marks DHS sites with significantly changed chromatin accessibility (FDR < 0.05, n = 3 replicates). b MA plot of fold-change in K562 chromatin accessibility over average signal following 72-h 1 μM SAHA treatment. Red marks DHS sites with significantly changed chromatin accessibility (FDR < 0.05, n = 3 replicates). c Representative example of SAHA-opened DHS site found near the promoter of CD207. d Representative example of SAHA-closed DHS site found in an intron of DNMT3A. e Distribution of all DHS sites and differential DHS sites between promoter (< 2 kb from TSS) and non-promoter location. f Regularized log-transformed DNase-seq data for vehicle control K562 (DMSO or PBS) and HDACi-treated K562 (0.5 mM NaBut, 2 mM NaBut, or 1 μM SAHA) plotted in first two principal components of PCA