REAGENT or RESOURCE	SOURCE	IDENTIFIER
Chemicals, Peptides, and Recombinant Proteins
Recombinant human mononucleosomes	EpiCypher	Cat# 16-0006
Recombinant human mononucleosomes H3 K9ac	EpiCypher	Cat# 16-0314
Activated DNA	Trevigen	Cat# 4671-096-06
NAD+	Trevigen	Cat# 4684-096-02
32P-NAD+	Hartmann Analytic	Cat# ARP 0141
Histone H3 (1 - 21), Biotinylated	AnaSpec	Cat# AS-61702
Histone H3K4me (1 - 21), Biotinylated	AnaSpec	Cat# AS-64355
Histone H3K4me2 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64356
Histone H3K4me3 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64357
Histone H3R8me (1 - 21), Biotinylated	AnaSpec	Cat# AS-64607
Histone H3R8me2 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64972
Histone H3R8me2 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64972
Histone H3K9ac (1 - 21), Biotinylated	AnaSpec	Cat# AS-64361
Histone H3K9me (1 - 21), Biotinylated	AnaSpec	Cat# AS-64358
Histone H3K9me2 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64359
Histone H3K9me3 (1 - 21), Biotinylated	AnaSpec	Cat# AS-64360
Histone H3S10ph (1 - 21), Biotinylated	AnaSpec	Cat# AS-64611
Histone H3T11ph (1 - 21), Biotinylated	AnaSpec	Cat# AS-64973
Histone H3K14ac (1 - 21), Biotinylated	AnaSpec	Cat# AS-64362
Histone H3 peptide 1-20aa, biotinylated	EpiCypher	Cat# 12-0001
Recombinant human PARP1 protein	Langelier et al., 2011	N/A
Recombinant human PARP2 protein	Langelier et al., 2014	N/A
Histone H3 peptide K4ac 1-20aa, biotinylated	EpiCypher	Cat# 12-0002
Histone H3 peptide K14ac 1-20aa, biotinylated	EpiCypher	Cat# 12-0004
Histone H3 peptide K18ac 1-20aa, biotinylated	EpiCypher	Cat# 12-0005
Histone H3 peptide K4me3 1-20aa, biotinylated	EpiCypher	Cat# 12-0009
Histone H3 peptide K18me3 1-20aa, biotinylated	EpiCypher	Cat# 12-0015
Histone H3 peptide K9ac 1-20aa, biotinylated	EpiCypher	Cat# 12-0003
Histone H3 peptide K9me1 1-20aa, biotinylated	EpiCypher	Cat# 12-0010
Histone H3 peptide K9me2 1-20aa, biotinylated	EpiCypher	Cat# 12-0011
Histone H3 peptide K9me3 1-20aa, biotinylated	EpiCypher	Cat# 12-0012
Histone H3 peptide S10ph 1-20aa, biotinylated	EpiCypher	Cat# 12-0041
Histone H3 peptide 15-34aa, biotinylated	EpiCypher	Cat# 12-0016
Histone H3 peptide 27-45aa, biotinylated	EpiCypher	Cat# 12-0020
Histone H4 peptide 1-23aa, biotinylated	EpiCypher	Cat# 12-0029
Histone H4 peptide K5ac 1-23aa, biotinylated	EpiCypher	Cat# 12-0030
Histone H4 peptide K8ac 1-23aa, biotinylated	EpiCypher	Cat# 12-0031
Histone H4 peptide R3me 1-23aa, biotinylated	EpiCypher	Cat# 12-0059
Histone H2A peptide 1-17aa, biotinylated	EpiCypher	Cat# 12-0112
Histone H3 peptide K36ac 27-45aa, biotinylated	EpiCypher	Cat# 12-0129
Histone H3 peptide K36me1 27-45aa, biotinylated	EpiCypher	Cat# 12-0174
Histone H3 peptide K36me2 27-45aa, biotinylated	EpiCypher	Cat# 12-0115
Histone H3 peptide K36me3 27-45aa, biotinylated	EpiCypher	Cat# 12-0212
Recombinant human HPF1 protein	Gibbs-Seymour et al., 2016	N/A
Recombinant human HPF1 Y238F protein	This paper	N/A
Recombinant human HPF1 Y238A protein	This paper	N/A
Recombinant human HPF1 Y238E protein	This paper	N/A
Recombinant human ARH3 protein	Fontana et al., 2017	N/A
Imperial Protein Stain	Thermofisher Scientific	Cat# 24615
Olaparib	Cayman Chemical	Cat# 10621
Histone H3 (21-44), Biotinylated	AnaSpec	Cat# AS-64641
Histone H3K27ac (21-44), Biotinylated	AnaSpec	Cat# AS-64637
Histone H3 (21-44), Biotinylated	AnaSpec	Cat# AS-64440
Histone H3K27me1 (21-44), Biotinylated	AnaSpec	Cat# AS-64365
Histone H3K27me2 (21-44), Biotinylated	AnaSpec	Cat# AS-64366
Histone H3K27me3 (21-44), Biotinylated	AnaSpec	Cat# AS-64367
Histone H3/H4 tetramer	Mehrotra et al., 2011	N/A
p300, human, recombinant, catalytic domain	Enzo Life Sciences	Cat# BML-SE451-0100
Dim-5, recombinant, Neurospora crassa	Zhang et al., 2002	N/A
Baronase	Gift from Francis Barr (University of Oxford)	N/A
PARP3, human, recombinant	Bonfiglio et al., 2017b	N/A
PARP10 catalytic domain, human, recombinant	Palazzo et al., 2016	N/A
Recombinant human PARP1 E988Q protein	Langelier et al., 2011	N/A
HDAC2, human recombinant	Active Motif	Cat# 31505
SIRT2, human, recombinant	Rack et al., 2014	N/A
Antibodies
anti-pan-ADP-ribose (rabbit monoclonal)	Millipore	Cat# MABE1016; RRID:AB_2665466
anti-PAR (rabbit polyclonal)	Trevigen	Cat# 4336-BPC-100; RRID:AB_2721257
anti-Flag HRP-conjugated (mouse monoclonal)	Sigma-Aldrich	Cat# A8592; RRID:AB_439702
anti-HPF1 (rabbit polyclonal)	Gibbs-Seymour et al., 2016	N/A
anti-Flag M2 agarose-conjugated (mouse monoclonal)	Sigma-Aldrich	Cat#: A2220; RRID:AB_1006303
anti-ARH3/ADPRH (rabbit polyclonal)	Atlas Antibodies	Cat#: HPA027104; RRID:AB_1060133
anti-histone H3, CT, pan (rabbit polyclonal)	Millipore	Cat#: 07-690; RRID:AB_417398
anti-H3K9ac (rabbit monoclonal)	Cell Signaling	Cat#: 9649; RRID:AB_823528
anti-H3K14ac (rabbit monoclonal)	Cell Signaling	Cat#: 7627S; RRID:AB_1083941
anti-H3K27ac (rabbit monoclonal)	Cell Signaling	Cat#: 8173P; RRID:AB_1094988
anti-H3K36ac (rabbit monoclonal)	Cell Signaling	Cat#: 27683
anti-H3K9me3 (rabbit polyclonal)	Abcam	Cat#: ab8898; RRID:AB_306848
anti-H3K27me3 (rabbit polyclonal)	Gift from Rob Klose (University of Oxford)	N/A
anti-pan-Kac (rabbit polyclonal)	Cell Signaling	Cat#: 9441; RRID:AB_331805
anti-H3S10P (rabbit polyclonal)	Abcam	Cat#: ab5176; RRID:AB_304763
anti-cyclin A (rabbit polyclonal)	Santa Cruz Biotechnology	Cat#: sc-751; RRID:AB_631329
anti-cyclin B1 (rabbit polyclonal)	Millipore	Cat#: 05-373; RRID:AB_309701
anti-cyclin E1 (mouse monoclonal)	Cell Signaling	Cat#: 4129; RRID:AB_2071200
anti-PRC1 T481P (rabbit monoclonal)	Abcam	Cat#: ab62366; RRID:AB_944969
anti-Cdc2 Y15P (rabbit monoclonal)	Cell Signaling	Cat#: 4539S; RRID:AB_560953
anti-p21 (rabbit polyclonal)	Santa Cruz Biotechnology	Cat#: sc-397; RRID:AB_632126
anti-pan-Kac (rabbit polyclonal)	Abcam	Cat#: ab21623; RRID:AB_446436
anti-PARP1 (rabbit monoclonal)	Abcam	Cat#: ab32138; RRID:AB_777101
Experimental Models: Cell Lines
Human: U2OS cells	ATCC	Cat# HTB-96
Human: U2OS ARH3 KO cells	Fontana et al., 2017	N/A
Human: 293T cells	ATCC	Cat# CRL-3216
Human: 293T HPF1 KO cells	Gibbs-Seymour et al., 2016	N/A
Human: 293T PARP1 KO cells	Gift from John Pascal (University Montreal)	N/A
Recombinant DNA
pDONR221 (Gateway vector)	Thermo Fisher Scientific	12536017
Flag-H3.1 WT (plasmid)	Palazzo et al., 2018	N/A
Flag-H3.1 S10A (plasmid)	Palazzo et al., 2018	N/A
Flag-H3.1 K9A (plasmid)	This paper	N/A
Flag-H3.1 K9R (plasmid)	This paper	N/A
Flag-H3.1 K9Q (plasmid)	This paper	N/A
Flag-HPF1 WT (plasmid)	Gibbs-Seymour et al., 2016	N/A
Flag-HPF1 Y238A (plasmid)	Gibbs-Seymour et al., 2016	N/A
Flag-HPF1 Y238F (plasmid)	This paper	N/A
Flag-HPF1 S97A (plasmid)	This paper	N/A
Flag C3X-EV (Gateway vector)	Gibbs-Seymour et al., 2016	N/A
Flag CMV-EV (Gateway vector)	Gibbs-Seymour et al., 2016	N/A
Software and Algorithms
MaxQuant proteomics suite of algorithms (version 1.5.3.17)	Cox and Mann, 2008	http://www.coxdocs.org/doku.php?id=maxquant:start
Deposited Data
Mass spectrometry data: MS analysis of endogenous histones	Leidecker et al., 2016	ProteomeXchange: PXD005462
Mass spectrometry data: enrichment of modified peptides with a macrodomain ADPr-binding module	Martello et al., 2016	ProteomeXchange: PXD004245
Mass spectrometry data: cellular ADP-ribosylome characterization with HCD and EThcD	Bilan et al., 2017	ProteomeXchange: PXD004676