Correlation between chromatin anchored at the nuclear periphery and the Hi-C map. (A) Correlation between NUP1:GFP RE-ChIP-seq signal and Hi-C map. The Hi-C maps (normalized at 20-kb resolution) of the left and right Chromosome 1 arms are shown as Spearman correlation matrices, from which PCA was conducted; the eigenvalues of the first component are plotted below (red and blue bars) together with the NUP1:GFP signal (green lines, 20-kb window size), represented as the log₂ value of the ratio between normalized anti-GFP and IgG coverage. (B) Anti-correlation between the telomeres and NUP1:GFP RE-ChIP-seq signal. The left panel shows a Spearman correlation matrix of Chromosome 3 derived from a Hi-C map at 20-kb resolution. Arrows depict KEE regions. The right panels highlight the 6-Mb distal chromosome regions, in which their correlation with the chromosome terminus (the first 20 kb of Chromosome 3) in the Hi-C map are shown as black curves. Green curves show the NUP1:GFP signal, as in A. Due to physical linkage, chromosome termini are expected to have strong colocalization with telomeres in the nucleus. In a Hi-C experiment, chromosome termini can be used to infer the spatial interactions between telomeres and other genomic regions.