GSM3178646: Nrd1-AA MNase-seq +Rap rep2; Saccharomyces cerevisiae; MNase-Seq
MNase treatment was performed as described in (Weiner et al., 2015).The chromatin was extracted by breaking cells with bead beating in magnalyser (Roche). The chromatin was then collected by centrifugation and then re-suspended in NP-buffer (0.5 mM spermidine, 1 mM β-ME, 0.075% NP40, 50 mM NaCl, 10 mM Tris pH 7.4, 5 mM MgCl2, 1 mM CaCl2). MNase (Thermo-Scientific) treatment is performed at a previously optimised concentration to have comparable intensity of both mono and di nucleosomes within and between the samples.  MNase treatment was followed by de-crosslinking, protease treatment and DNA was extracted using NucleoSpin gel and PCR extraction columns (Macherey-Nagel). MNase treatment was performed as described in (Weiner et al., 2015).The chromatin was extracted by breaking cells with bead beating in magnalyser (Roche). The chromatin was then collected by centrifugation and then re-suspended in NP-buffer (0.5 mM spermidine, 1 mM β-ME, 0.075% NP40, 50 mM NaCl, 10 mM Tris pH 7.4, 5 mM MgCl2, 1 mM CaCl2). MNase (Thermo-Scientific) treatment is performed at a previously optimised concentration to have comparable intensity of both mono and di nucleosomes within and between the samples.  MNase treatment was followed by de-crosslinking, protease treatment and DNA was extracted using NucleoSpin gel and PCR extraction columns (Macherey-Nagel).