GSM7156061: HSC_ACT_H3K18ac_rep2; Mus musculus; OTHER
Mouse primary HSCs were incubated with NE1 buffer on ice for 10 min. After collecting nuclear pellets, concanavalin A-coated magnetic beads were mixed and incubated for 10 min at RT. Next, the unbound supernatant was removed, and the bead-bound cells were resuspended in antibody buffer. Anti-H3K18la (PTM-1406, PTM Biolabs), anti-H3K18ac (ab1191, Abcam), and anti-IgG negative control (13-0042, EpiCypher) antibodies were added, and incubated on a nutator overnight at 4 °C. The primary antibodies were removed, and incubation with 0.5 ug of secondary antibody was performed on a nutator for 1 h at RT followed by incubation with pAG-Tn5 in 300-wash buffer for 1 h at RT. The bead/nucleus pellet was resuspended in tagmentation buffer, and the mixture was incubated for 1 h at 37 °C. Next, the bead/nucleus pellet was resuspended in TAPS buffer. The bead/nucleus pellet was then resuspended in SDS release buffer and incubated for 1 h at 58 °C. Next, SDS quenching buffer was added. To amplify the libraries, 2 ul of a universal i5 and a uniquely barcoded i7 primer (10 uM stocks) were added. A volume of 25 ul of NEBNext High-Fidelity 2x PCR Master mix was added and mixed. The samples were placed in athermocycler with aheated lid using the following cycling conditions: 58 °C for 5 min; 72 °C for 5 min; 98 °C for 45 sec; 14 cycles of 98 °C for 15 sec and 60 °C for 10 sec; final extension at 72 °C for 1 min; and hold at 8 °C. Post-PCR clean-up was performed by adding 1.3x AMPure XP beads, and the libraries were incubated with the beads for 10 min at RT, washed twice gently in 80% ethanol, and eluted in 15 ul of 10 mM Tris pH 8.0. The tubes were placed on a magnetic stand, and the liquid was withdrawn into a fresh tube.