Skip to main content
Fig. 6 | Epigenetics & Chromatin

Fig. 6

From: HDAC inhibitors cause site-specific chromatin remodeling at PU.1-bound enhancers in K562 cells

Fig. 6

Chromatin features distinguish HDACi-opened from stable DHS sites bound by PU.1. a Performance of random forest classifier in distinguishing PU.1-bound DHS sites that remain stable in accessibility from those that significantly open. Plot shows accuracy, specificity, and sensitivity for 10 separate runs with 75 % of input data used for training and the remaining 25 % used for testing. b Ranking of top 15 features by Gini index. The same factor may appear more than once if data are available from multiple ENCODE centers. Broad Broad Institute, HAIB Hudson Alpha Institute for Biotechnology, UW University of Washington, SYDH Stanford, Yale, Davis, Harvard. Full results can be found in Additional file 12: Table S5. ce Top positive predictors of PU.1-bound DHS site opening are shown as heatmaps of ChIP-seq signal present at each DHS site (DHS center ±5 kb for H3K27me3 and ±1.5 kb for TFs). Mean ChIP-seq signal in the same intervals plotted below

Back to article page