Figure 2.

MINUTE-ChIP Reveals High H3K27me3 and Low H3K4me3 Levels in Naive Mouse ESC

(A) Left: quantitative comparison of H3K4me3 levels in biological triplicates of Rw4 mESC grown in serum versus 2i condition (pool 1) or serum versus 2i/serum condition (pool 2). INRCs were calculated and plotted with respect to the serum condition in each pool. Right: quantitative comparison of H3K27me3 levels in biological triplicates of Rw4 mESC grown in serum versus 2i condition (pool 1 and pool 3) or serum versus 2i/serum condition (pool 2) is shown. Three different H3K27me3 antibodies were used as indicated. p values are reported from a two-sided t test.

(B) Schematic summary of pluripotent states defined by global H3K4me3 and H3K27me3 levels.

(C) Example H3K27me3 and H3K4me3 tracks from pool 1 and pool 2 (average of three biological replicates for each condition). Tracks are scaled as reads per genomic content relative to serum condition (RPGC_Serum) as common reference point between the two pools. Additional tracks show gain (green) and losses (red) for each quantitative comparison, as well as 10-kb windows deemed to be significantly (p adj. < 0.05) increased (green) or decreased (red) among replicates.

See also Figure S2.