Fig. 1

The shift between CTCF and cohesin bound sites. (a) The scatter plot shows the maxima of ChIP fragment coverage of CTCF, RAD21, SMC1/3 and STAG1 on CTSs specific for the given human cell or tissue type (Methods). The vertical axis shows the maxima of the average fragment depth and their position relative to the midpoint of CTSs is represented on the horizontal axis. HeLa results are marked with black border. (b) Distribution of the CTCF/cohesin proteins relative to the midpoint of 21,994 individual CTSs in HeLa cell line. Top: Histogram of summit distribution of the CTCF and cohesin bound sites using a 5 bp sliding window. Middle: Box plots indicate the mean (shown as ‘+’) and median (vertical line) peak summit positions of CTCF, SMC3 and RAD21 bound regions. The bottom panel shows the mapping on the CTCF motif logo (see Methods). (c) Distance distribution of cohesin proteins relative to the CTCF. Horizontal axis represents the distance of RAD21 (blue curve) and SMC3 summits (green curve) relative to the CTCF summits (orange line) and vertical axis represents the distance frequency. Rolling mean with 5 bp window was applied to smooth the frequency curves