REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
ETO	Diagenode	Cat# C15310197
RUNX1 (C-terminal epitope)	Abcam	Cat# 23980; RRID: AB_2184205
C/EBPα	Abcam	Cat# 40761; RRID: AB_726792
LDB1	Abcam	Cat# 96799; RRID: AB_10679400
LMO2	R&D	Cat# AF2726; RRID: AB_2249968
CTCF	Abcam	Cat# 70303; RRID: AB_1209546
JUND	Santa Cruz	Cat# sc74; RRID: AB_2130177
GAPDH	Sigma	Cat# F3165; RRID: AB_259529
Anti-Rabbit HRP	Cell signalling	Cat# 7074; RRID: AB_2099233
Anti-Mouse HRP	Jackson	Cat# 115-0350-62; RRID: AB_2338504
CD34 Monoclonal Antibody (4H11), PE	eBioscience	Cat# 12-0349-42; RRID: AB_1548680
c-Kit Monoclonal Antibody (104D2), FITC	eBioscience	Cat# 11-1178-42; RRID: AB_2572472
Oligonucleotides
Oligonucleotide sequences, see Table S2	This Paper	NA
Chemicals, Peptides, and Recombinant Proteins
TruSeq Stranded mRNA with Ribo-Zero human assay	Illumina	Cat# 20020596
TruSeq RNA Sample Prep kit	Illumina	Cat#RS-122-2001
KAPA hyper Prep Kit	Kapa Biosystems	KK8500
KAPA Library Quantification kit	Kapa Biosystems	Cat#KK4824
MinElute Gel Extraction Kit	QIAGEN	Cat#28604
DNaseI	Worthington,	DPPF grade
AMPure XP beads	Beckman Coulter	Cat#A63882
NextSeq500 High output 150 cycles	Illumina	Cat#FC-404-2002
NextSeq500 High output 75 cycles	Illumina	Cat#FC-404-2005
Nucleospin RNA column	Machery Nagel,	740955.50
OligoDT primer	Promega	C110A
Murine Moloney Virus reverse transcriptase	Promega	M170A
RNase Inhibitor	Promega	N261A
Sybr Green mix	Applied Biosystems	4309155
Proteinase K	Roche	03115801001
Di(N-succinimidyl) glutarate (DSG)	Sigma-Aldrich	80424
MyOne Streptavidin C1	DynaBeads Invitrogen	65601
MyOne Streptavidin T1	DynaBeads Invitrogen	65001
Formaldehyde	(Pierce, Thermos Scientific, USA	28906
(NEB)2 buffer	NEB	37002
Critical Commercial Assays
Dead Cell Removal microbeads	Miltenyi Biotec	130090101
Annexin V-APC/PI staining	Ebiosciences	88-8007-74
High Sensitivity DNA Chips	Agilent Technologies	5067-4626
RNA Pico Chips	Agilent Technologies	5067-1513
High Pure PCR Product Purification Kit	Roche	11732676001
SureSelect target enrichment	Agilent Technologies	5190-4393
HindIII	NEB	R0104M
Deposited Data
CHIP-seq data	This study	GSE121282
DNaseI-seq data	This study	GSE121282
RNA-seq data	This study	GSE121282
Capture HiC	This study	GSE117108
reprogramming ATAC-Seq	Corces et al., 2016	GSE75384
Published ChIP-Seq	Ptasinska et al., 2014	GSE60131
Experimental Models: Cell Lines
Kasumi-1 human cell line	DSMZ	ACC220
Software and Algorithms
Bowtie 2	Langmead and Salzberg, 2012	http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
MACS2	Zhang et al., 2008	https://github.com/taoliu/MACS
Homer	Heinz et al., 2010	http://homer.ucsd.edu/homer/motif/
Cufflinks v2.2.1	Trapnell et al., 2013	http://cole-trapnell-lab.github.io/cufflinks/announcements/protocol-paper/
Bedtools	Quinlan and Hall, 2010	https://bedtools.readthedocs.io/en/latest/
STAR	Dobin et al., 2013	https://github.com/alexdobin/STAR
Wellington algorithm	Piper et al., 2013	https://pythonhosted.org/pyDNase/
Illustrator	Adobe System Software Ireland	https://www.adobe.com/cn/products/cs6/illustrator.html
ZEN	Zeiss	https://www.zeiss.com/microscopy/int/microscope-cameras.html
GraphPad Prism 6.0	GraphPad Software	https://www.graphpad.com/scientificsoftware/prism/