Single-cell joint ATAC-RNA of Homo sapiens: GM12878 cell line
Isolated single cells were mild crosslinked with 4% PFA on ice. Then cell nuclei were isolated with ice-cold cell lysis buffer (10 mM Tris-HCl pH 7.5, 10 mM NaCl, 3 mM MgCl2, 0.01% Digitonin, 0.1% Tween-20, 0.2% IGEPAL CA630, 1 U/L RNase inhibitor). Accessible chromatin were captured with using 25 L transposition mix (12.5 L 2 x TD buffer from Nextera kit, 8.75 L 1 x PBS (pH 7.4), 0.25 L 1% Digitonin, 0.25 L 10% Tween, 2 L 1.25 M META transposome, 1.25 L 20 U/L RNase inhibitor), then nuclei were sorted to 96-well plates, accessible fragments were released with an ionic detergent (SDS), then amplified with META primers and barcoded. Then a whole 99-well plate was pooled and sequenced.