title: GSM6927720: HiC_cKO6: Satb2 flx/flx::Nes-Cre DIV14 primary cortical cultures, 1h bic, rep6; Mus musculus; Hi-C
library_construction_protocol: For in situ Hi-C, Arima-HiC kit was used, according to the manufacturer's protocol. Briefly, 2.5x106 primary cortical neurons were fixed directly on the dish by addition of formaldehyde to a final concentration of 1 % for 10 min on RT. After washing twice with 1X PBS cells were detached using a cell lifter and collected in 1X PBS containing protease inhibitors. Cells were pelleted at 500 g for 10 min at 4 °C and pellets were directly snap-frozen in liquid nitrogen. After nuclei isolation and chromatin digestion, biotin was added and filled ends were ligated. After reverse crosslinking and purification, DNA was shared using a M220 Covaris sonicator at duty factor 12 %, PIP 75, CPB 200 for 60 s to achieve input fragment size of 400 bp. Additionally, DNA was size-selected using AMPure XP beads, according to Arima HiC kit manual. Hi-C libraries were prepared using Swift Biosciences Accel-NGS 2S Plus DNA Library Kit according to Arima-HiC Kit User Guide (November 2018)