REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
WAPL	Santa Cruz	Cat# A-7
SCC4	Abcam	Cat# Ab46906
SCC2 N-terminal	Santa Cruz	Cat# C-9
SCC2 C-terminal	Absea	Cat# Serum of KT55
HSP90	Santa Cruz	Cat# H-114
Actin	Santa Cruz	Cat# I-19
CDK4	Santa Cruz	Cat# C-22
SCC1	Millipore	Cat# 05-908
CTCF	Millipore	Cat# 07-72
SMC1A	Bethyl	Cat# A300-055a
IgG Rabbit	Sigma	Cat# I5006
Goat anti-Rabbit-PO	DAKO	Cat# P0448
Goat anti-Mouse-PO	DAKO	Cat# P0447
Rabbit anti-Goat-PO	DAKO	Cat# P0449
Rabbit anti-Rat-PO	Santa Cruz	Cat# Sc2006
Goat anti-Mouse-488	Mol probes	Cat# A11029
Chemicals, Peptides, and Recombinant Proteins
Blasticidin S	Invitrogen	Cat# R210-101
Puromycin	Sigma-Aldrich	Cat# P7255
TRIzol	Invitrogen	Cat# 15596-018
Poly-L-lysine	Sigma-Aldrich	Cat# P8920
DAPI	Sigma-Aldrich	Cat# D9542
Fix buffer I	BD biosciences	Cat# 557870
Propidium Iodide	Cayman Chemical Company	Cat# 10008351
RNase A	QIAGEN	Cat# 1032722
Dynabeads M270 streptavidin-coated beads	Life technologies	Cat# 65305
Circligase II	Epicenter	Cat# CL9025K
Accuprime Taq HiFi	Life technologies	Cat# 12346-086
MboI	New England Biolabs	Cat# R0147L
Biotin-14-dATP	Life Technologies	Cat# 19524-016
DpnII	New England Biolabs	Cat# R0543L
Csp6I	Thermo Scientific	Cat# ER0211
Critical Commercial Assays
TruSeq PolyA Stranded mRNA sample preparation kit	Illumina	Cat# RS-122-2103
HiSeq SR Cluster Kit v4 cBot	Illumina	Cat# GD-401-4001
Cleanpcr beads	CleanNA	Cat# CPCR-0050
KAPA Library preparation kit	Illumina	Cat# KK8234
Deposited Data
Hi-C, 4C, DamID,RNA-seq, ChIP-seq, haploid screen	This paper	GEO: GSE95015
Experimental Models: Cell Lines
HAP1	Carette et al., 2011	N/A
HAP1 ΔWAPL	This paper	N/A
HAP1 ΔSCC4	This paper	N/A
HAP1 ΔWAPL /ΔSCC4	This paper	N/A
HAP1 SCC2inA	This paper	N/A
HAP1 ΔWAPL / SCC2inA	This paper	N/A
HAP1 SCC2 Δ2-10	This paper	N/A
HAP1 ΔWAPL / SCC2 Δ2-10	This paper	N/A
Hek293T	ATCC	N/A
Experimental Models: Organisms/Strains
Recombinant DNA
pX330	Addgene	Cat# 42230
pDonorBlast	Blomen et al., 2015	N/A
pDonorPuro	Blomen et al., 2015	N/A
SCC1-GFP	Gerlich et al., 2006	N/A
Gene-trap plasmid	Jae et al., 2013	N/A
Sequence-Based Reagents
Gene editing primers	Table S1	N/A
ChIP primers	Table S1	N/A
4C primers	Table S1	N/A
Hi-C primers	Table S1	N/A
Primers for LAM-PCR procedure	Blomen et al., 2015	N/A
Linker for ssDNA ligation	Blomen et al., 2015	N/A
SCC4 TARGETplus Smartpool	Dharmacon	Cat# L-031981-01-0005
Software and Algorithms
LAS-AF FRAP-Wizard	Leica	N/A
Fiji	ImageJ	http://.imagej.net/welcome
Prism	GraphPad	www.graphpad.com
SoftWorx	Applied Precision	N/A
Crispr design	Crispr.mit.edu	N/A
Bedtools	42	N/A
Bowtie	Langmead et al., 2009	N/A
Bowtie2 v2.2.6	Langmead et al., 2009	N/A
Cutadapt	Martin, 2011	N/A
HiC-Pro v2.7.7	Servant et al., 2015	N/A
Juicer	Durand et al., 2016	N/A
HiCseg	Lévy-Leduc et al., 2014	N/A
peakC	This paper	https://github.com/deWitLab/peakC
Rank-product	Breitling et al., 2004	N/A
DESeq2	Love et al., 2014	N/A
HTSeq	Anders et al., 2015	N/A
Macs2 v2.1.1	Feng et al., 2012	N/A
R v3.1.X	https://www.r-project.org/	N/A
MEME suite v4.11.1	Grant et al., 2011	N/A