Additional file 15: of 2C-ChIP: measuring chromatin immunoprecipitation signal from defined genomic regions with deep sequencing

Figure S7. RA-induced NT2-D1 differentiation is accompanied by extensive conformational and epigenomic changes along the HOXA gene cluster. Changes in the frequency of chromatin contacts occurring early after RA induction (a; 0 – 6 h RA), after 3 days (b; 6 h – 3d RA), or in the later phase of the time course (c; 3d – 7d) are shown in heatmap form. Heatmap values represent IF differences between later and earlier time points that are color-coded according to the scale in panel a, with blue indicating a loss of contact and red an interaction gain. Regions highlighted in heatmaps are as described in Fig. 5. Tracks under each heatmap represent corresponding changes in the levels of chromatin marks or bound proteins detected with 2C-ChIP. The dashed black box identifies a HOXA cluster region slow to lose H3K27me3 signal (PDF 572 kb