Supplementary Figure 2: In situ HiC diffHiC differential interactions and compartment analysis.
From: Smchd1 regulates long-range chromatin interactions on the inactive X chromosome and at Hox clusters
Histograms of the differential interactions (DIs) called at 100kb (a) and 1Mb (b), plotting the distance between the two genomic anchors (Bin centre, X axis) against the frequency of interactions (Y axis). c. Summary TADbit analysis using the first eigenvector to identify compartments from a correlation matrix of normalised HiC data at 1MB resolution across chromosome 11 in Smchd1fl/fl and Smchd1del/del samples, showing no significant changes in compartment assignment (90% overlap genome-wide). The first principle component of the PCA on the Hi-C correlation matrix is shown as a green line, the density as an orange line, and the blue or red block indicates A vs B compartment d-e. Distribution of strengthened (green bars) and weakened (red bars) interactions at 1 Mb (d) and 100 kb (e) resolution. Differential interactions are spread across all chromosomes, but cluster at Smchd1 binding sites such as the X chromosome.
