Figure 2

Histone acetylation and replication timing in ES cells. (a) The level of acetyl-H3K9 relative to total H3 is shown for each probe in >200 kb regions surrounding the candidate loci (values represent log2{acetylH3K9/H3}). The peaks of histone acetylation were identified using the hidden Markov model and are marked in blue. The location of candidate genes are shown (black box) relative to other genes (white box) within each region. Arrows show the position of the primers used for the replication timing analysis and the size bars (black) represent 25 kb. Raw data are available in Additional data file 3. (b) The replication timing of candidate loci in untreated ES cells (white bars) and after incubation with 10 nM (black bars) or 20 nM (gray bars) TSA is shown as histograms. The mean values and standard error from at least two (two to three) independent experiments are shown.