GSM9820551: HLF ARID1B-KO IgG CUT&RUN, DMSO, rep1; Homo sapiens; OTHER
CUT&RUN adapted from EpiCypher protocol. 200,000-500,000 cells, Concanavalin A beads, overnight primary antibody at 4°C (H3K4me3 CST #3076423; H3K27ac CST #2561016; ARID1B CST #65747 clone E1U7D; FOXA1; FOXA2; IgG CST #550038), guinea pig anti-rabbit secondary (Novus NBP1-72763 1:100), pAG-MNase 700 ng/ml 1 h 4°C, CaCl2 digestion on ice 30 min, stop buffer quench, Zymo D4014 cleanup. KAPA HyperPrep Kit (Roche #07962363001). 14 PCR cycles. Paired-end 50 bp or 150 bp reads on Illumina NextSeq 1000 (HepG2) or NovaSeq X Plus 10B (HLF).