Rabbit anti h3k27ac

ChIP-seq was performed on WT hESCs (day 0), hMGEs (day 15), and hcINs (day 35) for H3K27ac and H3K4me3 and on the line with heterozygous disruption of CHD2 (CHD2^+/−) in hMGEs (day 15), and in hcINs (day 35) for H3K27ac, as described previously^{15 (link)}. The antibodies used were Rabbit anti-H3K27ac (Millipore 07-360) and Rabbit anti-H3K4me3 (Millipore 07-473). Library preparation and sequencing were performed by GTAC@MGI using the HiSeq3000 sequencer to obtain at least 30 M single end 50 base pair reads per sample. ChIP-seq data analysis was performed as described previously^{15 (link)}.

We used Rabbit anti-CTCF (1:100, Millipore Cat#07-729), Rabbit anti-NPAT (1:100, Termo Fisher Cat#PA5-66839), Rabbit anti-H3K4me1 (1:100, Abcam Cat#ab8895), Rabbit anti-H3K4me2 (1:100, Millipore Cat#07-030), Rabbit anti-H3K4me3 (1:100, Active Motif Cat#39159), Rabbit anti-H3K27me3 (1:100, Cell Signaling Tech Cat#9733S). Since pA-MNase does not bind efficiently to many mouse antibodies, we used a rabbit anti-Mouse IgG (1:100, Abcam, Cat#ab46540) as an adapter. H3K27ac was profiled by AutoCUT&RUN in H1 and K562 cells and manually in VUMC-10 and SU-DIPG-XIII cell lines using Rabbit anti-H3K27ac (1:50, Millipore Cat#MABE647). H3K27ac was profiled by AutoCUT&RUN in VUMC-10 and SU-DIPG-XIII cell lines and xenografts using Rabbit anti-H3K27ac (1:100, Abcam Cat#ab45173).