Quantitative multiplexed ChIP-Seq comparing mouse embryonic stem cells grown in Serum or 2i condition.

Quantitative multiplexed ChIP-Seq reveals high levels of H3K27me3 broadly covering the genome and low levels of H3K4me3 in 2i condition (ground state). Bivalent promoters, a defining feature of pluripotent cells, are also present in the ground state. H3K27me3 is maintained at high levels at bivalent promoters, similar to those in Serum, while H3K4me3 is reduced more than twofold. Overall design: Rw4 mouse embryonic stem cells were grown in either serum-free medium with PD0325901 and CHIR99021 (“2i”), regular serum-based medium (“Serum”), or serum-based medium with 2i (“2i/Serum”) for at least three passages. mTORi cells were treated with 200nM INK128 (VWR, CAYM11811) for 48h. 1e6 cells of each condition/replicate were collected. This dataset contains MINUTE-ChIP data from three pools (P1-3). Biological replicates, where applicable, are stored in distinct raw files under the same entry and combined in the processed data file