Supplementary Figure 1: Capture Hi-C biological-replicate reports. | Nature Structural & Molecular Biology

Supplementary Figure 1: Capture Hi-C biological-replicate reports.

From: Genome-wide mapping of long-range contacts unveils clustering of DNA double-strand breaks at damaged active genes

Supplementary Figure 1

a. Table summarizing the number of reads pairs (total or uniquely mapped) obtained for each sample in the two biological replicates (BR#1 and BR#2). Total number of pairs (first lane), or pairs joining two close loci (cis <10kb), two loci on the same chromosome (cis>10kb) or two loci on different chromosomes (trans) are indicated. b. Hi-CUP summary reports showing the proportion of trans, cis close (<10kb) and cis far (>10kb) reads pairs for each samples. c. SeqMonk generated snap shot of read pairs density across chromosome 1, for each samples. Position of 2Mb domains where were designed the probes, as well as AsiSI-induced DSBs positions are shown on the top. Read pairs are strongly enriched in captured domains. d. Box-plot showing the natural log number of interactions (normalized, see Online Methods) between all possible pairs of 2Mb captured (C) or uncaptured (NC) domains on the genome for each samples. (Wilcoxon Mann-Whitney) Center line: median; Box limits the first and third quartiles; Whiskers: maximum and minimum without outliers e. Scatterplot showing the number of interactions (normalized) between all possible pairs of 100kb bins captured for BR#1 (x axis) versus BR#2 (y axis) for undamaged (-4OHT, left) and damaged samples (+4OHT, right).

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