title: GSM9166463: MINO BRG WT_ATAC; Homo sapiens; ATAC-seq
library_name: GSM9166463
library_construction_protocol: MINO cells expressing wildtype or mutant SMARCA4 or treated with FHD-286 were analyzed by ATAC-seq and Cut&Run. CCMCL1 cells expressing cas9-sgROSA or cas9-sgBRG1 were analyzed by ATAC-seq. JEKO cells ectopically expressing MEF2B were analyzed by Cut&Run analysis. For ATAC-seq, 55,000 cells flash-frozen in 10% DMSO were lysed, permeabilized, and tagmented using the Omni ATAC-seq protocol followed by 12 cycles of barcoding PCR. Gel-purified libraries were sequenced on the Element Biosciences AVITI to obtain approximately 10M paired-end reads. For Cut&Run, 50,000 MCL cells were harvested and fixed with 0.1% formaldehyde for 5 min and further processed by Epicypher ChIC system. All the recovered DNA was used for dual indexed library preparation and sequenced for 10M paired end reads per sample.