Fig. 3: Analysis of SCC1 and CTCF ChIP-seq data.

https://mlv.molbiol.ox.ac.uk/projects/multi_locus_view/2057 Data taken from from the The Structural Basis for Cohesin-CTCF-anchored Loops¹¹. a Histograms of CTCF (i) and cohesin (ii) log2 fold changes. The bars are coloured by tags (green - high CTCF, blue - low CTCF). b Filtering of strong CTCF binding sites with no decrease in SCC1 binding in the CTCF mutant. (i) Histogram showing the bimodal distribution of the CTCF log2 fold changes between the mutant and the WT in the selected regions. The green bars show black listed regions. (ii) Histogram of cohesin log2 fold change between the mutant and WT, the grey box shows the regions (those with a log2 fold change greater than 0) that were selected. (iii) Pie chart showing the proportion of black listed regions (green) in the selected regions. (iv) Row chart showing tags, which was used to select regions with strong CTCF binding (high CTCF). c Representative samples of genome browser images. The upper track shows CTCF ChIP-seq peaks with the grey track being WT and the red track, the CTCF mutant. The lower track shows SCC1 (cohesin) data with the WT grey and the CTCF mutant and green (i) the small left-hand peak in b(i) consisting of black listed regions, (ii) regions with strong CTCF binding, but no reduction of cohesin binding in the CTCF mutant (the large right-hand peak in b(ii)), (iii) typical peaks for the majority of regions with strong CTCF binding.