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Fig. 5 | Epigenetics & Chromatin

Fig. 5

From: Tip60 complex binds to active Pol II promoters and a subset of enhancers and co-regulates the c-Myc network in mouse embryonic stem cells

Fig. 5

Tip60 binding defines active gene sets and enhancer regions. a Heatmap showing k-means clustering of Tip60 (GSE69671), Pol II (GSM307623), H3K27ac (GSM594578), H3K4me3 (GSM307618), H3K4me1 (GSM594577) and H3K27me3 (GSM307619) using 7693 high-confidence Tip60 binding sites as reference coordinates. Densities are represented in region of 5 kb around Tip60 binding sites. Four clusters are defined as indicted by the dotted lines. The two “enhancer” peaks are divided into H3K4me1 positive and H3K4me1 negative peaks. The colour scale bars under each data set in A reflect the read densities between 1 and 20 of the given dataset. The number of reads of each data set is indicted in the colour scale bars in millions (m) of reads. b GO term analyses of Pol II positive or bivalent peaks after gene annotation using Manteia [62]. c UCSC genome browser profiles of DHS, Tip60 binding, presence of H3K4me3 and H3K27me3, Pol II binding and input (negative control) at a randomly chosen bivalent gene, Stc2, are shown. An arrow labels the gene orientation. d Density profiles of Tip60 binding at the different clusters as defined in panel a

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