Table 2. Genome and chromatin profiling data used in this paper.

Description	Technique	Cell type	Reference
Gene expression mESC	RNA-seq	mESC	This work
Gene expression NMuMG	Microarray	NMuMG	[67]
Replication timing	ChIP-chip	mESC	[65]
H3K9me2	ChIP-chip	mESC	[64]
LaminB1	DamID	mESC	[66]
Hi-C	Hi-C	mESC	[39]
mC; hmC	Bisulfite sequencing; hMeDIP	mESC	[61]
CpG island proximity; gene proximity	NA	NA	[67]
Dnase I hypersensitivity	ChIP-seq	mESC	[69]
H3K4me3; H4K20me3	ChIP-seq	mESC	[49]
H3K9me3	ChIP-seq	mESC	[70]
H3K27me3; H3K36me3; H2AZ	ChIP-seq	mESC	[71]
Atrx	ChIP-seq	mESC	[72]
BrgJ1	ChIP-seq	mESC	[73]
cMyc; E2f1; Esrrb; Klf4; nMyc; Oct4; Smad1; Sox2; Stat3; Suz12; Tcfcp2|1; Zfx	ChIP-seq	mESC	[74]
H3K79me2; Nanog; Tcf3	ChIP-seq	mESC	[75]
Ezh2	ChIP-seq	mESC	[76]
SetDB1	ChIP-seq	mESC	[77]
Jarid2; Mtf2	ChIP-seq	mESC	[78]
Tbx3	ChIP-seq	mESC	[79]
Ctr9; Pol2-Ser2P; Pol2-Ser5P	ChIP-seq	mESC	[80]
Luzp1	ChIP-seq	mESC	[81]
Chd7	ChIP-seq	mESC	[82]
Med1; Med12; Smc1; Smc3	ChIP-seq	mESC	[48]
H3K27ac; H3K4me1	ChIP-seq	mESC	[51]
Yy1	ChIP-seq	mESC	[83]
CTCF; p300	ChIP-seq	mESC	[84]
H3K9ac	ChIP-seq	mESC	[85]
Taf3	ChIP-seq	mESC	[86]
Jaridb1	ChIP-seq	mESC	[87]
Smad2/3; Smad3	ChIP-seq	mESC	[88]
Kap1	ChIP-seq	mESC	[89]
H3K4me2	ChIP-seq	mESC	[90]
macroH2A1	ChIP-seq	mESC	[91]
p53; p53S18P	ChIP-seq	mESC	[92]
Cbx7; Ring1b	ChIP-seq	mESC	[93]
CoREST; Hdac1; Hdac2; Lsd1; Mi-2b	ChIP-seq	mESC	[94]
Dpy30	ChIP-seq	mESC	[95]
Mbd3	ChIP-seq	mESC	[96]
Mcaf1	ChIP-seq	mESC	[97]
Pol2-Ser7P	ChIP-seq	mESC	[98]
Tbp	ChIP-seq	mESC	[99]
Ell	ChIP-seq	mESC	[100]