title: GSM7505260: KJ6 WT; Saccharomyces cerevisiae; Hi-C
library_construction_protocol: Hi-C was performed as detailed in Jeppsson et al., 2022. Briefly, S. cerevisiae cells were crosslinked with 3 % formaldehyde for 20 minutes at room temperature. Following spheroplasting and gentle lysis, restriction digestion of crosslinked chromatin by DpnII (NEB, R0543M) was performed overnight at 37°C, after which the restriction enzyme was inactivated by incubation at 62°C for 20 minutes. The presence of intact and individual DNA masses throughout the spheroplasting, digestion and ligation steps were confirmed by DAPI (4′,6-diamidino-2-phenylindole)-staining and microscopy. Marking and repairing DNA ends, proximity ligation, crosslink reversal, DNA shearing, size selection, biotin pull-down, preparation for Illumina sequencing, final amplification (15 cycles) and purification were then performed as in Jeppsson et al., 2022. Marking and repairing DNA ends, proximity ligation, crosslink reversal, DNA shearing, size selection, biotin pull-down, preparation for Illumina sequencing, final amplification (15 cycles) and purification was performed as in ref. (Rao, S. S. et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell 159, 1665-1680, doi:10.1016/j.cell.2014.11.021 (2014).