GSM8694314: Spn1 R263D, RNA, 37C, Rep1; Saccharomyces cerevisiae; RNA-Seq
For both RNA-seq and ChIP-seq experiments, yeast strains were grown as described above and temperature shifts were performed. RNA extractions were prepared as described previously (Dronamraju et al., 2018). ChIPs were performed as described in Dronamraju et al. 2018, with minor modifications. In the current set of experiments, after the temperature shift and before cell lysis and sonication, yeast cells were mixed with 1% of S. pombe yeast cells. Following the spike-in of S. pombe, lysis and sonication and immunoprecipitation was performed with total RNAPII antibody as described previously (Dronamraju et al., 2018). MNase digestions were performed as described previously (Belsky et al., 2015). RNA and ChIP libraries were performed as previously described (Dronamraju et al. 2018), with stranded libraries being made for the RNA-seq. MNase library preparations of the ideally digested samples (generating a nucleosomal ladder) were performed on bead-bound DNA as previously described (Gutierrez et al., 2019).