REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Rat anti-Epcam	eBioscience	17-5791-82; RRID:AB_2716944
Rat anti-Thy-1.2	BioLegend	105318; RRID: AB_492888
Mouse anti-SSEA1	Millipore	MC-480; RRID:AB_177627
Mouse anti-Oct4	Santa Cruz Biotechnology	sc-5279; RRID: AB_628051
Goat anti-Sox2	Santa Cruz Biotechnology	sc-17320; RRID:AB_2286684
Rabbit anti-Klf4	Santa Cruz Biotechnology	sc-20691; RRID: AB_669567
Rabbit anti-cMyc	Santa Cruz Biotechnology	sc-764; RRID: AB_631276
Rat anti-Nanog	eBioscience	eBioMLC-51; RRID:AB_763613
Mouse anti-Sall4	Santa Cruz Biotechnology	sc-101147; RRID: AB_1129262
Chemicals, Oligos, and Recombinant Proteins
FuGENE6	Promega	E269A
Doxycycline hyclate	Sigma	D9891-5G
PD0325901	Cayman Chemical	13034
CHIR99021	Tocris	4423
Human LIF	Prepared in-house	N/A
Oligos	Sigma	See Table S3
Critical Commercial Assays
GoTag green master mix	Promega	M3005
SYBR Green PCR Master	Applied Biosystems	ABS-4367659
EZ DNA Methylation Kit	Zymo Research	D5001
QIAamp DNA mini Kit	QIAGEN	51306
NucleoSpin RNA	Macherey-Nagel	740955.250
Experimental Models: Organisms/Strains
C57BL/6 × C3H mice	Bred in house	N/A
CD1 mice	Bred in house	N/A
Rosa25-rtTA, Gof18 mice	This study	N/A
Oct4flox/flox; Rosa26- Cre ERT2 mice	This study	N/A
Deposited Data
RNA-seq	This study	GEO: GSE137001
Software and Algorithms
R	R Core Team	https://www.R-project.org
DESeq2	(Love et al., 2014)	http://bioconductor.org/packages/release/bioc/html/DESeq2.html
mFUZZ	(Kumar and E Futschik, 2007)	http://bioconductor.org/packages/release/bioc/html/Mfuzz.html
CLC 11	QIAGEN Bioinformatics	https://qiagenbioinformatics.com
Venny2.1	Oliveros, J.C.	https://bioinfogp.cnb.csic.es/tools/venny
Enrichr	(Kuleshov et al., 2016)	http://amp.pharm.mssm.edu/Enrichr/
Geneontology	(Ashburner et al., 2000)	http://geneontology.org
DAVID	(Huang et al., 2009)	https://david.ncifcrf.gov