Fig. 2

Chromatin digestion and ligation in DNAse Hi-C experiments. a) Reproducibility of chromatin digestion by DNase I under the conditions recommended by Ramani et al. [21] and Ma et al. [22] assessed in three independent replicas. 1—Ramani et al., 1 U DNase I. 2—Ramani et al., 2 U DNase I. 3—Ma et al., 2 U DNase I. 4—Ma et al., 4 U DNase I. 5—Ma et al., 6 U DNase I. Lane M shows a 100 bp DNA ladder. b Intermediate controls of high-quality libraries: 1—intact gDNA, 2—DNase I digestion of cross-linked chromatin under the conditions described by Ramani et al., and 3—ligation of DNase I-digested chromatin from lane 2