GSM9458444: 22Rv1-dTAG-FOXA1, DMSO, 1.5h, biol rep 3; Homo sapiens; ATAC-seq
ATAC-seq was performed using the Active Motif ATAC-Seq Buffer Set (Cat#: 53153) and 96-well Pre-Indexed Assembled Tn5 Transposomes (Cat#: 53152) according to the manufacturer's protocol. After treatment, cells were washed twice with ice-cold PBS and lysed directly in-plate with 150 µL ATAC lysis buffer (Active Motif). Lysates were centrifuged at 500 × g for 10 min at 4 °C, and the supernatant was carefully removed to isolate nuclei. Each nuclei pellet was resuspended in 46 µL Tagmentation Master Mix (1× Tagmentation Buffer, 1× PBS, 0.01 % digitonin, 0.1 % Tween-20). ATAC-seq was performed using the Active Motif ATAC-Seq Buffer Set and 96-well Pre-Indexed Assembled Tn5 Transposomes according to the manufacturer's protocol. For indexing, each sample was combined with a distinct well of the Pre-Indexed Assembled Tn5 Transposome plate, ensuring unique barcode assignment per sample. Plates were sealed, gently vortexed, quick-spun, and incubated at 37 °C for 30 min with gentle mixing every 10 min. DNA was purified and libraries were prepared according to the manufacturer's protocol. Libraries were cleaned by SPRI-bead purification and gel extraction to enrich for fragments < 1 kb, then multiplexed and sequenced on an Illumina NextSeq 2000 using 50-bp single-end reads.