Reagent or resource	Source	Identifier
Antibodies
Goat anti-Sox1	R&D Systems	Cat# AF3369; RRID: AB_2239879
Goat anti-Sox2	R&D Systems	Cat# AF2018; RRID: AB_355110
Mouse anti-Tuj1	BioLegend	Cat# 801202; RRID: AB_10063408
Rabbit anti-Tuj1	BioLegend	Cat# 802001; RRID: AB_2564645
Rabbit anti-H3K9me3	Abcam	Cat# ab8898; RRID: AB_306848
Propidium Iodide	BD	Cat# 556463
DAPI	Thermo Fisher Scientific	Cat# D1306; RRID: AB_2629482
Anti-Mouse IgG (Alexa Fluor 488-coupled)	ThermoFisher Scientific	Cat# A10037; RRID: AB_2534013
Anti-Rabbit IgG (Alexa Fluor 488-coupled)	ThermoFisher Scientific	Cat# A10042; RRID: AB_2534017
Alexa Fluor 488 donkey anti-goat IgG	Invitrogen	Cat# A-11055; RRID: AB_2534102
Alexa Fluor 488 donkey anti-mouse IgG	Invitrogen	Cat# A-21202; RRID: AB_141607
Alexa Fluor 488 donkey anti-rabbit IgG	Invitrogen	Cat# A-21206; RRID: AB_2535792
Alexa Fluor 555 donkey anti-mouse IgG	Invitrogen	Cat# A-31570; RRID: AB_2536180
Alexa Fluor 555 donkey anti-rabbit IgG	Invitrogen	Cat# A-31572; RRID: AB_162543
Chemicals, peptides, and recombinant proteins
DMEM media	ThermoFisher Scientific	Cat# 11965092
DMEM/F12 media	Thermo Fisher	Cat# 1132033
Neurobasal-A medium	ThermoFisher Scientific	Cat# 10888022
mTeSR1 media	Stemcell Technologies	Cat# 85850
HyClone cosmic calf serum (CCS)	GE Healthcare	Cat# SH30087.04
HyClone fetal bovine serum (FBS)	GE Healthcare	Cat# SH30071.03
Knockout serum replacement	ThermoFisher Scientific	Cat# 10828028
Penicillin–Streptomycin	ThermoFisher Scientific	Cat# 15140163
l-Glutamine	ThermoFisher Scientific	Cat# 25030164
Sodium pyruvate	ThermoFisher Scientific	Cat# 11360070
GlutaMAX supplememnt	ThermoFisher Scientific	Cat# 35050061
MEM non-essential amino acids solution (100X)	ThermoFisher Scientific	Cat# 11140050
2-Mercaptoethanol	Gibco	Cat# 21985023
N2 supplement (100×)	ThermoFisher Scientific	Cat# 17502048
B-27 supplement (50×)	Thermo Fisher	Cat# 12587010
H-EGF	PeproTech	Cat# 100-47
H-FGF-basic-154	PeproTech	Cat# 10018B
Insulin	Sigma-Aldrich	Cat# I6634
Heparin	Sigma	Cat# H3393
Ascorbic acid	Sigma	Cat# A4403
HEPES buffer solution	Gibco	Cat# 15630049
Matrigel	BD Biosciences	Cat# 356230
Polybrene	Sigma-Aldrich	Cat# H9268
Laminin in Tris-buffered saline	Sigma-Aldrich	Cat# L2020
Mitomycin C	Stress Marq Biosciences	Cat# SIH-246-10MG
Bambanker freezing medium	NIPPON Genetics	Cat# BB03
Trypsin 10× (2.5%)	Sigma	Cat# 59427C-100ML
Accutase	Innovative Cell	Cat# AT104
Doxycycline	Sigma-Aldrich	Cat# D9891
Blasticidin	Sigma-Aldrich	Cat# 203350
Puromycin	Sigma-Aldrich	Cat# P8833
Hygromycin B	Sigma-Aldrich	Cat# H3274
Y-27632	Stemcell Technologies	Cat# 72302
SB431542	Selleckchem	Cat# S1067
LDN193189	Selleckchem	Cat# S2618
CHIR99021	Tocris	Cat# 4423
Recombinant DNA
pMD2.G	Addgene	Cat# 12259; RRID: Addgene_12259
pRSV-Rev	Addgene	Cat# 12253; RRID: Addgene_12253
pMDLg/pRRE	Addgene	Cat# 12251; RRID: Addgene_12251
FUW-M2rtTA	Addgene	Cat# 20342; RRID: Addgene_20342
Ub-rtTA	Zhang et al., 2013
TetO-EGFP	Zhang et al., 2013	Addgene #84041
TetO-Ngn2-T2A-PuromycinResistance	Zhang et al., 2013	Addgene #52047
TetO-hygromycin	Generated in this work	N/A
TetO-GASC1-hygromycin	Generated in this work	N/A
TetO-DNMT3A-hygromycin	Generated in this work	N/A
TetO-KDM4A-hygromycin	Generated in this work	N/A
Experimental Models: cell lines
Human H1-ESCs	WiCell Research Institute	Cat# WA01
K562 cells	ATCC	Cat# CCL-243
HEK293T cells	ATCC	Cat# CRL-11268
Bacterial and virus strains
JM109 E. coli	New England Biolabs	Cat# E4107
Critical commercial assays
RNeasy Mini Kit	Qiagen	Cat# 74106
DNeasy Blood & Tissue Kit	Qiagen	Cat# 69506
Software and algorithms
ImageJ	NIH	RRID: SCR_003070
GraphPad Prism		https://www.graphpad.com/; RRID: SCR_002798