GSM8528449: NIPBL-D7_dTAG_0min_R1_HiC; Homo sapiens; Hi-C
Cells were fixed and processed according to the Arima Genomics HiC+ Kit protocol. For HiC of the RAD21 degron cell lines, cells were fixed and processed as-normal until prior to decrosslinking. At this stage, samples were stained with propidium iodide, and the G1/2N population was sorted in bulk. G1/2N sorted cells then reentered the HiC protocol. Proximity-ligated DNA was first sonicated to ~400 bp using a Covaris M220 with 50 W power, 10% duty factor and 200 cycles per burst for 78 seconds, and then size-selected using AMPure beads. For high-input HiC samples, library preparation was performed using KAPA HyperPrep (Roche #KK8502) according to instructions provided with the Arima Genomics HiC+ Kit, with library preparation done on streptavidin beads. For low-input HiC samples, library preparation was performed using 2S Plus DNA Library Kit (IDT #10009878), with pre-PCR library preparation done in solution before biotin enrichment using Dynabeads MyOne Streptavidin T1 beads, and PCR on bead-bound DNA.