The genomics of oxidative DNA damage, repair, and resulting mutagenesis

[Display omitted] Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate deci...

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Vydáno v:Computational and structural biotechnology journal Ročník 18; s. 207 - 219
Hlavní autor: Poetsch, Anna R.
Médium: Journal Article
Jazyk:angličtina
Vydáno: Netherlands Elsevier B.V 01.01.2020
Research Network of Computational and Structural Biotechnology
Elsevier
Témata:
8-oxo-7,8-dihydroguanine
8-oxoG
AP site
BER
Cancer
DNA
DNA damage
Epigenetics
genes
genetic instability
Genomics
inflammation
Mutagenesis
mutagens
neoplasms
nucleotide sequences
Oxidative stress
reactive oxygen species
Review
risk
ROS
Oxidative stress
8-oxo-7,8-dihydroguanine
Mutagenesis
Genomics
DNA damage
ROS
Epigenetics
AP site
8-oxoG
BER
Cancer
ISSN:2001-0370, 2001-0370
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Abstract [Display omitted] Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate decision process for the cell as to whether to repair a damaged base at a specific genomic location or better leave it unrepaired. Persistent DNA damage can disrupt genome function, but on the other hand it can also contribute to gene regulation by serving as an epigenetic mark. When such processes are out of balance, pathophysiological conditions could get accelerated, because oxidative DNA damage and resulting mutagenic processes are tightly linked to ageing, inflammation, and the development of multiple age-related diseases, such as cancer and neurodegenerative disorders. Recent technological advancements and novel data analysis strategies have revealed that oxidative DNA damage, its repair, and related mutations distribute heterogeneously over the genome at multiple levels of resolution. The involved mechanisms act in the context of genome sequence, in interaction with genome function and chromatin. This review addresses what we currently know about the genome distribution of oxidative DNA damage, repair intermediates, and mutations. It will specifically focus on the various methodologies to measure oxidative DNA damage distribution and discuss the mechanistic conclusions derived from the different approaches. It will also address the consequences of oxidative DNA damage, specifically how it gives rise to mutations, genome instability, and how it can act as an epigenetic mark.
AbstractList Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate decision process for the cell as to whether to repair a damaged base at a specific genomic location or better leave it unrepaired. Persistent DNA damage can disrupt genome function, but on the other hand it can also contribute to gene regulation by serving as an epigenetic mark. When such processes are out of balance, pathophysiological conditions could get accelerated, because oxidative DNA damage and resulting mutagenic processes are tightly linked to ageing, inflammation, and the development of multiple age-related diseases, such as cancer and neurodegenerative disorders. Recent technological advancements and novel data analysis strategies have revealed that oxidative DNA damage, its repair, and related mutations distribute heterogeneously over the genome at multiple levels of resolution. The involved mechanisms act in the context of genome sequence, in interaction with genome function and chromatin. This review addresses what we currently know about the genome distribution of oxidative DNA damage, repair intermediates, and mutations. It will specifically focus on the various methodologies to measure oxidative DNA damage distribution and discuss the mechanistic conclusions derived from the different approaches. It will also address the consequences of oxidative DNA damage, specifically how it gives rise to mutations, genome instability, and how it can act as an epigenetic mark.
Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate decision process for the cell as to whether to repair a damaged base at a specific genomic location or better leave it unrepaired. Persistent DNA damage can disrupt genome function, but on the other hand it can also contribute to gene regulation by serving as an epigenetic mark. When such processes are out of balance, pathophysiological conditions could get accelerated, because oxidative DNA damage and resulting mutagenic processes are tightly linked to ageing, inflammation, and the development of multiple age-related diseases, such as cancer and neurodegenerative disorders. Recent technological advancements and novel data analysis strategies have revealed that oxidative DNA damage, its repair, and related mutations distribute heterogeneously over the genome at multiple levels of resolution. The involved mechanisms act in the context of genome sequence, in interaction with genome function and chromatin. This review addresses what we currently know about the genome distribution of oxidative DNA damage, repair intermediates, and mutations. It will specifically focus on the various methodologies to measure oxidative DNA damage distribution and discuss the mechanistic conclusions derived from the different approaches. It will also address the consequences of oxidative DNA damage, specifically how it gives rise to mutations, genome instability, and how it can act as an epigenetic mark.Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate decision process for the cell as to whether to repair a damaged base at a specific genomic location or better leave it unrepaired. Persistent DNA damage can disrupt genome function, but on the other hand it can also contribute to gene regulation by serving as an epigenetic mark. When such processes are out of balance, pathophysiological conditions could get accelerated, because oxidative DNA damage and resulting mutagenic processes are tightly linked to ageing, inflammation, and the development of multiple age-related diseases, such as cancer and neurodegenerative disorders. Recent technological advancements and novel data analysis strategies have revealed that oxidative DNA damage, its repair, and related mutations distribute heterogeneously over the genome at multiple levels of resolution. The involved mechanisms act in the context of genome sequence, in interaction with genome function and chromatin. This review addresses what we currently know about the genome distribution of oxidative DNA damage, repair intermediates, and mutations. It will specifically focus on the various methodologies to measure oxidative DNA damage distribution and discuss the mechanistic conclusions derived from the different approaches. It will also address the consequences of oxidative DNA damage, specifically how it gives rise to mutations, genome instability, and how it can act as an epigenetic mark.
[Display omitted] Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and mutation. Such risks are due to primary oxidative DNA damage and also mediated by the repair process. This leads to a delicate decision process for the cell as to whether to repair a damaged base at a specific genomic location or better leave it unrepaired. Persistent DNA damage can disrupt genome function, but on the other hand it can also contribute to gene regulation by serving as an epigenetic mark. When such processes are out of balance, pathophysiological conditions could get accelerated, because oxidative DNA damage and resulting mutagenic processes are tightly linked to ageing, inflammation, and the development of multiple age-related diseases, such as cancer and neurodegenerative disorders. Recent technological advancements and novel data analysis strategies have revealed that oxidative DNA damage, its repair, and related mutations distribute heterogeneously over the genome at multiple levels of resolution. The involved mechanisms act in the context of genome sequence, in interaction with genome function and chromatin. This review addresses what we currently know about the genome distribution of oxidative DNA damage, repair intermediates, and mutations. It will specifically focus on the various methodologies to measure oxidative DNA damage distribution and discuss the mechanistic conclusions derived from the different approaches. It will also address the consequences of oxidative DNA damage, specifically how it gives rise to mutations, genome instability, and how it can act as an epigenetic mark.
Author Poetsch, Anna R.
AuthorAffiliation St. Anna Children’s Cancer Research Institute, Zimmermannplatz 10, 1090 Vienna, Austria
AuthorAffiliation_xml – name: St. Anna Children’s Cancer Research Institute, Zimmermannplatz 10, 1090 Vienna, Austria
Author_xml – sequence: 1
  givenname: Anna R.
  surname: Poetsch
  fullname: Poetsch, Anna R.
  email: arpoetsch@gmail.com
  organization: St. Anna Children’s Cancer Research Institute, Zimmermannplatz 10, 1090 Vienna, Austria
BackLink https://www.ncbi.nlm.nih.gov/pubmed/31993111$$D View this record in MEDLINE/PubMed
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Cites_doi 10.1152/ajplung.00236.2015
10.1038/nature22989
10.1038/nature14173
10.1073/pnas.1619809114
10.1016/j.febslet.2013.08.008
10.1126/science.aab4082
10.1093/emboj/cdf581
10.1093/toxsci/kfq371
10.1128/MCB.00624-06
10.1093/dnares/dsu023
10.1016/j.ccell.2017.04.005
10.1038/nature12477
10.2353/ajpath.2006.051280
10.1158/2159-8290.CD-15-0412
10.1016/j.molcel.2008.05.017
10.1021/acs.chemrev.8b00554
10.1101/sqb.2000.65.377
10.1021/tx0502589
10.1038/ncomms11383
10.1021/acschembio.7b00636
10.1038/s41598-019-52139-z
10.1074/jbc.M110.145896
10.1093/dnares/dsw038
10.1093/emboj/cdg595
10.1101/gr.175547.114
10.1089/ars.2013.5447
10.1016/j.mad.2011.10.009
10.1038/nature05978
10.1126/science.aao4426
10.1016/j.dnarep.2004.01.003
10.1186/s13059-018-1509-y
10.1038/s41568-018-0060-1
10.1074/jbc.272.21.13916
10.1016/j.cell.2013.03.025
10.1016/j.dnarep.2013.10.002
10.1021/acs.analchem.7b03487
10.1038/msb4100134
10.1093/nar/gkq170
10.1038/nature11273
10.1186/gb-2012-13-8-r69
10.1093/nar/gku417
10.1093/nar/30.3.823
10.7554/eLife.46922
10.1016/0092-8674(85)90191-6
10.1073/pnas.97.2.686
10.1074/jbc.M115.651042
10.1016/j.freeradbiomed.2007.02.024
10.1021/jacs.7b04131
10.1093/nar/gkj522
10.1021/bi00129a020
10.1562/0031-8655(2002)075<0257:DAAOAN>2.0.CO;2
10.1016/j.freeradbiomed.2007.08.027
10.1093/nar/29.10.2117
10.1021/acs.chemrestox.9b00041
10.1038/nature10995
10.1016/j.dnarep.2010.03.004
10.1016/j.cell.2019.03.001
10.1126/science.aaj2239
10.1016/j.freeradbiomed.2010.09.006
10.1016/j.jmb.2008.03.053
10.1016/j.cell.2017.07.003
10.1093/carcin/17.11.2419
10.1096/fj.04-1767fje
10.1093/carcin/23.11.1911
10.1016/j.cell.2017.04.022
10.1016/j.dnarep.2010.09.008
10.1074/jbc.M111.255869
10.1002/path.4643
10.1038/35049558
10.1074/jbc.M114.557769
10.1093/nar/gkp1247
10.1080/09553007214550401
10.1016/S0968-0004(02)02110-2
10.1016/j.molcel.2015.02.002
10.1021/jacs.6b12604
10.1038/ng.2764
10.1038/nrurol.2017.104
10.1021/ja411636j
10.1038/ng.3991
10.1074/jbc.M113.479055
10.1038/nature25179
10.1016/j.tibtech.2017.06.012
10.1073/pnas.1012860108
10.1039/c2cp40759k
10.1016/j.dnarep.2004.06.008
10.1016/j.dnarep.2003.10.002
10.1038/nchembio0706-348
10.1016/j.dnarep.2009.06.003
10.1038/nbt.2778
10.1038/s41586-018-0497-0
10.1128/MCB.26.5.1654-1665.2006
10.1097/WOX.0b013e3182439613
10.1038/nchembio796
10.1016/j.dnarep.2017.09.007
10.1126/science.1147674
10.1016/j.jhep.2018.06.009
10.1016/j.dnarep.2014.11.007
10.1038/s41588-019-0525-5
10.1093/nar/gkz207
10.1073/pnas.94.8.3633
10.1021/ja037027d
10.1038/355273a0
10.1021/bi00769a018
10.1038/s41467-019-12594-8
10.1080/10715769900300781
10.1016/j.cell.2018.10.004
10.1074/jbc.273.18.11069
10.1007/BF00286715
10.1016/j.freeradbiomed.2016.12.026
10.1186/s41021-016-0051-y
10.1016/j.molcel.2011.06.023
10.1016/j.freeradbiomed.2008.09.038
10.1016/j.cell.2012.04.024
10.1016/j.freeradbiomed.2016.12.049
10.1093/nar/gky1152
10.1128/MCB.01337-08
10.1242/jcs.03312
10.1128/MCB.00376-07
10.1093/nar/gkp1039
10.1038/s41467-018-04052-8
10.1038/ncomms6224
10.1007/978-1-0716-0763-3_8
10.1186/s13059-018-1582-2
10.1016/j.dnarep.2017.06.009
10.1371/journal.pone.0110963
10.1093/nar/gks1443
10.1093/nar/gkx1142
10.3389/fgene.2013.00018
10.1073/pnas.1330328100
10.1016/j.cell.2017.01.002
10.1038/287560a0
10.1038/s41557-019-0279-9
10.1093/nar/gku574
10.1021/bi034546k
10.1021/cr980321h
10.1007/s00018-018-2887-8
10.1084/jem.20091834
10.1101/gr.178335.114
10.1038/nature05985
10.1038/ng.2591
10.1038/ncomms15760
10.1038/ng.3357
10.1371/journal.pbio.1001807
10.1016/j.molcel.2017.06.026
10.1101/gr.225771.117
10.1016/j.cell.2019.02.012
10.1016/j.dnarep.2008.12.009
10.1038/nrg3152
10.1101/gr.231688.117
10.1016/j.molcel.2019.04.024
10.1038/362709a0
10.1126/science.aau3879
10.7554/eLife.08711
10.1038/nature19768
10.1093/nar/gkt731
10.1002/(SICI)1097-0231(199611)10:14<1789::AID-RCM752>3.0.CO;2-6
10.1021/bi701619u
10.1021/bi00288a026
10.1038/nature08987
10.1038/nrg3729
10.1038/349431a0
10.1016/j.cell.2019.02.051
10.1186/s13059-019-1659-6
10.1021/ja016530s
10.1016/j.tig.2018.04.005
10.1038/nature14183
10.1074/jbc.M806809200
10.1038/nature22822
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Keywords Oxidative stress
8-oxo-7,8-dihydroguanine
Mutagenesis
Genomics
DNA damage
ROS
Epigenetics
AP site
8-oxoG
BER
Cancer
Language English
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References Margolin, Cloutier, Shafirovich, Geacintov, Dedon (b0195) 2006; 2
Fleming, Ding, Burrows (b0305) 2017; 114
Liu, Liu, Geacintov, Shafirovich (b0885) 2012; 14
Di Mascio, Martinez, Miyamoto, Ronsein, Medeiros, Cadet (b0205) 2019; 119
Cogoi, Ferino, Miglietta, Pedersen, Xodo (b0520) 2018; 46
Wang, Hao, Pan, Boldogh, Ba (b0310) 2018; 75
Finkel, Serrano, Blasco (b0060) 2007; 448
Pastukh, Ruchko, Gorodnya, Wilson, Gillespie (b0095) 2007; 43
Swenberg, Lu, Moeller, Gao, Upton, Nakamura (b0260) 2011; 120
Loeb (b0725) 1985; 40
Blake, Stricker, Halavach, Poetsch, Cresswell, Kelly (b0470) 2016; 5
Poetsch, Boulton, Luscombe (b0085) 2018; 19
Petljak (b0835) 2019; 176
David, O’Shea, Kundu (b0235) 2007; 447
Kuninger, Izumi, Papaconstantinou, Mitra (b0665) 2002; 30
Martincorena, Campbell (b0055) 2015; 349
Nilsen, Lindahl, Verreault (b0490) 2002; 21
Krishnamurthy, Haraguchi, Greenberg, David (b0400) 2008; 47
Zou, Owusu, Harris, Jackson, Loizou, Nik-Zainal (b0810) 2018; 9
Pastukh, Roberts, Clark, Bardwell, Patel, Al-Mehdi (b0300) 2015; 309
Yoshihara, Jiang, Akatsuka, Suyama, Toyokuni (b0355) 2014; 21
Duncan, Miller (b0705) 1980; 287
Bhakat, Mokkapati, Boldogh, Hazra, Mitra (b0495) 2006; 26
Hamilton, Guo, Fuller, Van Remmen, Ward, Austad (b0240) 2001; 29
Sassa, Çağlayan, Dyrkheeva, Beard, Wilson (b0610) 2014; 289
Sasani, Pedersen, Gao, Baird, Przeworski, Jorde (b0040) 2019; 8
Liu, Lee, Swigut, Grow, Gu, Bassik (b0540) 2018; 553
Alexandrov (b0785) 2013; 500
von Zglinicki (b0140) 2002; 27
Schuster-Böckler, Lehner (b0870) 2012; 488
Blokzijl (b0170) 2016; 538
Menoni, Di Mascio, Cadet, Dimitrov, Angelov (b0485) 2017; 107
Amente, Di Palo, Scala, Castrignanò, Gorini, Cocozza (b0090) 2019; 47
Hailer-Morrison, Kotler, Martin, Sugden (b0280) 2003; 42
Supek, Lehner (b0570) 2019; 102647
Fleming, Zhu, Ding, Burrows (b0315) 2017; 12
The International Cancer Genome Consortium et al (b0160) 2010; 464
Shibutani, Takeshita, Grollman (b0715) 1991; 349
Lee-Six, Øbro, Shepherd, Grossmann, Dawson, Belmonte (b0175) 2018; 561
Nakamura, Walker, Upton, Chiang, Kow, Swenberg (b0375) 1998; 58
Goodarzi, Noon, Deckbar, Ziv, Shiloh, Löbrich (b0460) 2008; 31
Christensen, Van der Roest, Besselink, Janssen, Boymans, Martens (b0855) 2019; 10
Menoni, Gasparutto, Hamiche, Cadet, Dimitrov, Bouvet (b0480) 2007; 27
Cadet, Douki, Ravanat (b0190) 2006; 2
Roberts, Sobrino, Payton, Mason, Turesky (b0385) 2006; 19
Margolin, Shafirovich, Geacintov, DeMott, Dedon (b0500) 2008; 283
Gedik, Collins, ESCODD (b0255) 2005; 19
Cogoi, Shchekotikhin, Xodo (b0685) 2014; 42
Polak, Lawrence, Haugen, Stoletzki, Stojanov, Thurman (b0875) 2014; 32
Sagher, Strauss (b0730) 1983; 22
Pich, Muiños, Lolkema, Steeghs, Gonzalez-Perez, Lopez-Bigas (b0850) 2019; 51
Murugaesu, Wilson, Birkbak, Watkins, McGranahan, Kumar (b0745) 2015; 5
Georgakopoulos-Soares, Morganella, Jain, Hemberg, Nik-Zainal (b0530) 2018; 28
van Steensel, Belmont (b0430) 2017; 169
Supek, Lehner (b0565) 2015; 521
Lindahl (b0210) 1993; 362
Tornaletti, Maeda, Kolodner, Hanawalt (b0150) 2004; 3
Alexandrov, Kim, Haradhvala, Huang, Ng, Boot, Covington, Gordenin, Bergstrom, Lopez-Bigas, Klimczak, McPherson, Morganella, Sabarinathan, Wheeler, Mustonen, Getz, Rozen, Stratton (b0795) 2018; 322859
Markkanen (b0005) 2017; 59
Raiber, Beraldi, Ficz, Burgess, Branco, Murat (b0410) 2012; 13
Campalans, Amouroux, Bravard, Epe, Radicella (b0445) 2007; 120
Helleday, Eshtad, Nik-Zainal (b0815) 2014; 15
Natale, Rapp, Yu, Maiser, Harz, Scholl (b0580) 2017; 8
Kamenisch, Fousteri, Knoch, von Thaler, Fehrenbacher, Kato (b0625) 2010; 207
Larsen, Kwon, Coin, Egly, Klungland (b0290) 2004; 3
Frigola, Sabarinathan, Mularoni, Muiños, Gonzalez-Perez, López-Bigas (b0560) 2017; 49
Kwok, Merrick (b0320) 2017
Kucab, Zou, Morganella, Joel, Nanda, Nagy (b0770) 2019; 177
Serrano, Palmeira, Wallace, Kuehl (b0395) 1996; 10
Senthilkumar, Grozema, Guerra, Bickelhaupt, Siebbeles (b0505) 2003; 125
Ravanat, Douki, Duez, Gremaud, Herbert, Hofer (b0415) 2002; 23
Reuter, Gupta, Chaturvedi, Aggarwal (b0015) 2010; 49
Poetsch A.R. AP-seq, a method to measure apurinic sites and small base adducts genome-wide. Methods in Molecular Biology - The Nucleus, 3rd edition (Springer) 2020.
Ewing (b0645) 2007; 3
Park, Park, Oh, Maria, Kang, Tian (b0120) 2016; 11
Kubota, Takanami, Higashitani, Horiuchi (b0455) 2009; 8
Allgayer, Kitsera, Bartelt, Epe, Khobta (b0145) 2016; 44
Inoue, Kamiya, Fujikawa, Ootsuyama, Murata-Kamiya, Osaki, Yasumoto, Kasai (b0220) 1998; 273
Zhou, Liu, Fleming, Burrows, Wallace (b0515) 2013; 288
Meier, Cooke, Weiss, Bailly, Alexandrov, Marshall (b0805) 2014; 24
Perillo, Ombra, Bertoni, Cuozzo, Sacchetti, Sasso (b0700) 2008; 319
Tomkova, Tomek, Kriaucionis, Schuster-Böckler (b0110) 2018; 19
Liu, Martínez Cuesta, van Delft, Balasubramanian (b0155) 2019; 11
Arbeithuber, Makova, Tiemann-Boege (b0775) 2016; 23
David, Williams (b0405) 1998; 98
Vascotto, Fantini, Romanello, Cesaratto, Deganuto, Leonardi (b0660) 2009; 29
Roots, Okada (b0025) 1972; 21
Larson, Elnatan, Keenen, Trnka, Johnston, Burlingame (b0435) 2017; 547
Kasymov, Grin, Endutkin, Smirnov, Ishchenko, Saparbaev (b0615) 2013; 587
Martincorena, Fowler, Wabik, Lawson, Abascal, Hall (b0185) 2018; 362
Noren Hooten, Kompaniez, Barnes, Lohani, Evans (b0630) 2011; 286
Peña-Diaz, Bregenhorn, Ghodgaonkar, Follonier, Artola-Borán, Castor (b0825) 2017; 67
Lehner (b0035) 2007
Park, Han, Kim, Yeom, Kang, Park (b0100) 2019; 9
Rahimoff, Kosmatchev, Kirchner, Pfaffeneder, Spada, Brantl (b0265) 2017; 139
Maki, Sekiguchi (b0215) 1992; 355
Suzuki, Kamiya (b0740) 2017; 39
Nakano, Terato, Yoshioka, Ohyama, Kubo, Ide (b0380) 2002; 239–240
Sondka, Bamford, Cole, Ward, Dunham, Forbes (b0590) 2018; 18
Jiang, Malla, Fu, Choudhary, Rusling (b0595) 2017; 89
Ma, Shao, Tian, Flasch, Mulder, Edmonson (b0780) 2019; 20
Kawai, Wata, Hara, Tojo, Majima (b0600) 2002; 124
Reijns, Kemp, Ding, de Procé, Jackson, Taylor (b0865) 2015; 518
Morganella (b0880) 2016; 7
Beard, Wilson, Smerdon (b0475) 2003; 100
Costello, Pugh, Fennell, Stewart, Lichtenstein, Meldrim (b0420) 2013; 41
Mitchell, Meador, Paniker, Gasparutto, Jeffrey, Cadet (b0390) 2002; 75
Tubbs, Nussenzweig (b0050) 2017; 168
Tomkova, Schuster-Böckler (b0695) 2018; 34
Cooper, Krawczak (b0710) 1989; 83
Pal, Ramdzan, Kaur, Duquette, Marcotte, Leduy (b0635) 2015; 290
Connor, Rayner, Aitken, Feig, Lukk, Santoyo-Lopez (b0800) 2018; 69
Martincorena, Seshasayee, Luscombe (b0180) 2012; 485
Satou, Hori, Kawai, Kasai, Harashima, Kamiya (b0230) 2009; 8
Paiva, Bozza (b0010) 2014; 20
Broxson, Hayner, Beckett, Bloom, Tornaletti (b0525) 2014; 42
Boiteux, Guillet (b0335) 2004; 3
Nik-Zainal (b0790) 2012; 149
Fleming, Burrows (b0125) 2017; 56
Kennedy, Loeb, Herr (b0065) 2012; 133
Ding, Fleming, Burrows (b0075) 2017; 139
Atamna, Cheung, Ames (b0370) 2000; 97
Khobta, Anderhub, Kitsera, Epe (b0285) 2010; 38
Graham, Meeker (b0325) 2017; 14
Yamamori, DeRicco, Naqvi, Hoffman, Mattagajasingh, Kasuno (b0655) 2010; 38
Ross-Innes, Becq, Warren, Cheetham, Northen, O’Donovan (b0750) 2015; 47
Pich, Muiños, Sabarinathan, Reyes-Salazar, Gonzalez-Perez, Lopez-Bigas (b0105) 2018; 175
Birben, Sahiner, Sackesen, Erzurum, Kalayci (b0270) 2012; 5
Yamaguchi, Hirano, Asami, Chung, Sugita, Kasai (b0250) 1996; 17
Bravard, Vacher, Gouget, Coutant, de Boisferon, Marsin (b0345) 2006; 26
Markkanen, Dorn, Hübscher (b0720) 2013; 4
Yin, Morgunova, Jolma, Kaasinen, Sahu, Khund-Sayeed (b0690) 2017; 356
Crow (b0045) 2000
Mao, Brown, Malc, Mieczkowski, Smerdon, Roberts (b0575) 2017; 27
Shibutani, Takeshita, Grollman (b0735) 1997; 272
Weiner, Hsieh, Appleboim, Chen, Rahat, Amit (b0550) 2015; 58
Volkova, Meier, Gonzalez-Huici, Bertolini, Gonzalez, Abascal (b0820) 2019
Rhee, Ghosh, Lu, Bohr, Liu (b0510) 2011; 10
Dulak (b0755) 2013; 45
Sedletska, Radicella, Sage (b0330) 2013; 41
Akatsuka (b0425) 2006; 169
Morreall, Limpose, Sheppard, Kow, Werner, Doetsch (b0350) 2015; 26
Wu, Mckeague, Sturla (b0080) 2018
Berquist, McNeill, Wilson (b0675) 2008; 379
Ramon, Sauvaigo, Gasparutto, Faure, Favier, Cadet (b0275) 1999; 31
Ward (b0030) 2000; 65
Coluzzi, Colamartino, Cozzi, Leone, Meneghini, O’Callaghan (b0130) 2014; 9
Bhakat, Izumi, Yang, Hazra, Mitra (b0650) 2003; 22
van Loon, Markkanen, Hübscher (b0020) 2010; 9
Kim, Jinks-Robertson (b0585) 2012; 13
Lodato, Rodin, Bohrson, Coulter, Barton, Kwon (b0070) 2018; 359
Strom, Emelyanov, Mir, Fyodorov, Darzacq, Karpen (b0440) 2017; 547
Cadet, Davies, Medeiros, Di Mascio, Wagner (b0200) 2017; 107
Kubo, Ide, Wallace, Kow (b0365) 1992; 31
Farkash, Kao, Horman, Prak (b0535) 2006; 34
Zlatanou, Despras, Braz-Petta, Boubakour-Azzouz, Pouvelle, Stewart (b0830) 2011; 43
Lindahl, Nyberg (b0245) 1972; 11
Lujan, Clausen, Clark, MacAlpine, MacAlpine, Malc (b0860) 2014; 24
Satou, Kawai, Kasai, Harashima, Kamiya (b0225) 2007; 42
Fleming, Zhu, Ding, Burrows (b0545) 2019; 47
Moore, Toomire, Strauss (b0115) 2013; 12
Nones (b0760) 2014; 5
Kanu, Penicud, Hristova, Wong, Irvine, Plattner (b0465) 2010; 285
Xia, Huang, Bellani, Seidman, Wu, Fan, Nie, Cai, Zhang, Yu, Li, Zahnow, Xie, Chiu Yen, Rassool, Baylin (b0620) 2017; 31
Sczepanski, Wong, McKnight, Bowman, Greenberg (b0340) 2010; 107
Hirota, Matsui, Iwata, Nishiyama, Mori, Yodoi (b0670) 1997; 94
Gonzalez-Perez, Sabarinathan, Lopez-Bigas (b0765) 2019; 177
Supek, Lehner (b0840) 2017; 170
Fouquerel, Barnes, Uttam, Watkins, Bruchez, Opresko (b0135) 2019; 75
Ramdzan, Vadnais, Pal, Vandal, Cadieux, Leduy (b0640) 2014; 12
Rashid, Fischer, Wilson, Tiffen, Rust, Stevens (b0845) 2016; 238
Fleming, Zhu, Ding, Esders, Burrows (b0680) 2019; 32
Amouroux, Campalans, Epe, Radicella (b0450) 2010; 38
Ruchko, Gorodnya, Pastukh, Swiger, Middleton, Wilson (b0295) 2009; 46
Ming, Matter, Song, Veliath, Shanley, Jones (b0605) 2014; 136
The Cancer Genome Atlas Research Network, Weinstein, Collisson, Mills, Shaw, Ozenberger, Ellrott, Shmulevich, Sander, Stuart (b0165) 2013; 45
Li, Mao, Tong, Huang, Gu, Yang (b0555) 2013; 153
Beard (10.1016/j.csbj.2019.12.013_b0475) 2003; 100
Mao (10.1016/j.csbj.2019.12.013_b0575) 2017; 27
Yoshihara (10.1016/j.csbj.2019.12.013_b0355) 2014; 21
Kamenisch (10.1016/j.csbj.2019.12.013_b0625) 2010; 207
Maki (10.1016/j.csbj.2019.12.013_b0215) 1992; 355
Ross-Innes (10.1016/j.csbj.2019.12.013_b0750) 2015; 47
Paiva (10.1016/j.csbj.2019.12.013_b0010) 2014; 20
Coluzzi (10.1016/j.csbj.2019.12.013_b0130) 2014; 9
Kwok (10.1016/j.csbj.2019.12.013_b0320) 2017
Roots (10.1016/j.csbj.2019.12.013_b0025) 1972; 21
David (10.1016/j.csbj.2019.12.013_b0405) 1998; 98
Swenberg (10.1016/j.csbj.2019.12.013_b0260) 2011; 120
Raiber (10.1016/j.csbj.2019.12.013_b0410) 2012; 13
Ewing (10.1016/j.csbj.2019.12.013_b0645) 2007; 3
Ma (10.1016/j.csbj.2019.12.013_b0780) 2019; 20
Rahimoff (10.1016/j.csbj.2019.12.013_b0265) 2017; 139
Nik-Zainal (10.1016/j.csbj.2019.12.013_b0790) 2012; 149
Di Mascio (10.1016/j.csbj.2019.12.013_b0205) 2019; 119
Murugaesu (10.1016/j.csbj.2019.12.013_b0745) 2015; 5
Lujan (10.1016/j.csbj.2019.12.013_b0860) 2014; 24
Peña-Diaz (10.1016/j.csbj.2019.12.013_b0825) 2017; 67
Goodarzi (10.1016/j.csbj.2019.12.013_b0460) 2008; 31
Fleming (10.1016/j.csbj.2019.12.013_b0545) 2019; 47
Shibutani (10.1016/j.csbj.2019.12.013_b0715) 1991; 349
Margolin (10.1016/j.csbj.2019.12.013_b0195) 2006; 2
Bravard (10.1016/j.csbj.2019.12.013_b0345) 2006; 26
The Cancer Genome Atlas Research Network (10.1016/j.csbj.2019.12.013_b0165) 2013; 45
Larsen (10.1016/j.csbj.2019.12.013_b0290) 2004; 3
Georgakopoulos-Soares (10.1016/j.csbj.2019.12.013_b0530) 2018; 28
Kawai (10.1016/j.csbj.2019.12.013_b0600) 2002; 124
Bhakat (10.1016/j.csbj.2019.12.013_b0495) 2006; 26
Satou (10.1016/j.csbj.2019.12.013_b0225) 2007; 42
Graham (10.1016/j.csbj.2019.12.013_b0325) 2017; 14
Lodato (10.1016/j.csbj.2019.12.013_b0070) 2018; 359
Akatsuka (10.1016/j.csbj.2019.12.013_b0425) 2006; 169
Meier (10.1016/j.csbj.2019.12.013_b0805) 2014; 24
Supek (10.1016/j.csbj.2019.12.013_b0840) 2017; 170
Tornaletti (10.1016/j.csbj.2019.12.013_b0150) 2004; 3
Shibutani (10.1016/j.csbj.2019.12.013_b0735) 1997; 272
Farkash (10.1016/j.csbj.2019.12.013_b0535) 2006; 34
Sondka (10.1016/j.csbj.2019.12.013_b0590) 2018; 18
Rashid (10.1016/j.csbj.2019.12.013_b0845) 2016; 238
Tubbs (10.1016/j.csbj.2019.12.013_b0050) 2017; 168
Kuninger (10.1016/j.csbj.2019.12.013_b0665) 2002; 30
Weiner (10.1016/j.csbj.2019.12.013_b0550) 2015; 58
Helleday (10.1016/j.csbj.2019.12.013_b0815) 2014; 15
Broxson (10.1016/j.csbj.2019.12.013_b0525) 2014; 42
Arbeithuber (10.1016/j.csbj.2019.12.013_b0775) 2016; 23
Park (10.1016/j.csbj.2019.12.013_b0120) 2016; 11
Kubota (10.1016/j.csbj.2019.12.013_b0455) 2009; 8
Ramdzan (10.1016/j.csbj.2019.12.013_b0640) 2014; 12
The International Cancer Genome Consortium et al (10.1016/j.csbj.2019.12.013_b0160) 2010; 464
Markkanen (10.1016/j.csbj.2019.12.013_b0005) 2017; 59
Blokzijl (10.1016/j.csbj.2019.12.013_b0170) 2016; 538
Petljak (10.1016/j.csbj.2019.12.013_b0835) 2019; 176
Nakano (10.1016/j.csbj.2019.12.013_b0380) 2002; 239–240
Menoni (10.1016/j.csbj.2019.12.013_b0480) 2007; 27
Roberts (10.1016/j.csbj.2019.12.013_b0385) 2006; 19
Tomkova (10.1016/j.csbj.2019.12.013_b0110) 2018; 19
Tomkova (10.1016/j.csbj.2019.12.013_b0695) 2018; 34
Zlatanou (10.1016/j.csbj.2019.12.013_b0830) 2011; 43
Amente (10.1016/j.csbj.2019.12.013_b0090) 2019; 47
Perillo (10.1016/j.csbj.2019.12.013_b0700) 2008; 319
Alexandrov (10.1016/j.csbj.2019.12.013_b0795) 2018; 322859
Nones (10.1016/j.csbj.2019.12.013_b0760) 2014; 5
van Loon (10.1016/j.csbj.2019.12.013_b0020) 2010; 9
Loeb (10.1016/j.csbj.2019.12.013_b0725) 1985; 40
Pal (10.1016/j.csbj.2019.12.013_b0635) 2015; 290
Sassa (10.1016/j.csbj.2019.12.013_b0610) 2014; 289
Liu (10.1016/j.csbj.2019.12.013_b0155) 2019; 11
Kubo (10.1016/j.csbj.2019.12.013_b0365) 1992; 31
Li (10.1016/j.csbj.2019.12.013_b0555) 2013; 153
Hirota (10.1016/j.csbj.2019.12.013_b0670) 1997; 94
Dulak (10.1016/j.csbj.2019.12.013_b0755) 2013; 45
Serrano (10.1016/j.csbj.2019.12.013_b0395) 1996; 10
Cogoi (10.1016/j.csbj.2019.12.013_b0520) 2018; 46
Noren Hooten (10.1016/j.csbj.2019.12.013_b0630) 2011; 286
Fouquerel (10.1016/j.csbj.2019.12.013_b0135) 2019; 75
Polak (10.1016/j.csbj.2019.12.013_b0875) 2014; 32
Morreall (10.1016/j.csbj.2019.12.013_b0350) 2015; 26
Xia (10.1016/j.csbj.2019.12.013_b0620) 2017; 31
Nakamura (10.1016/j.csbj.2019.12.013_b0375) 1998; 58
Costello (10.1016/j.csbj.2019.12.013_b0420) 2013; 41
Reijns (10.1016/j.csbj.2019.12.013_b0865) 2015; 518
Morganella (10.1016/j.csbj.2019.12.013_b0880) 2016; 7
Moore (10.1016/j.csbj.2019.12.013_b0115) 2013; 12
Volkova (10.1016/j.csbj.2019.12.013_b0820) 2019
Vascotto (10.1016/j.csbj.2019.12.013_b0660) 2009; 29
Berquist (10.1016/j.csbj.2019.12.013_b0675) 2008; 379
Park (10.1016/j.csbj.2019.12.013_b0100) 2019; 9
Connor (10.1016/j.csbj.2019.12.013_b0800) 2018; 69
Sasani (10.1016/j.csbj.2019.12.013_b0040) 2019; 8
Natale (10.1016/j.csbj.2019.12.013_b0580) 2017; 8
Kennedy (10.1016/j.csbj.2019.12.013_b0065) 2012; 133
Hailer-Morrison (10.1016/j.csbj.2019.12.013_b0280) 2003; 42
Gedik (10.1016/j.csbj.2019.12.013_b0255) 2005; 19
Sagher (10.1016/j.csbj.2019.12.013_b0730) 1983; 22
Kanu (10.1016/j.csbj.2019.12.013_b0465) 2010; 285
Martincorena (10.1016/j.csbj.2019.12.013_b0180) 2012; 485
10.1016/j.csbj.2019.12.013_b0360
van Steensel (10.1016/j.csbj.2019.12.013_b0430) 2017; 169
Fleming (10.1016/j.csbj.2019.12.013_b0315) 2017; 12
Nilsen (10.1016/j.csbj.2019.12.013_b0490) 2002; 21
Suzuki (10.1016/j.csbj.2019.12.013_b0740) 2017; 39
Martincorena (10.1016/j.csbj.2019.12.013_b0185) 2018; 362
Campalans (10.1016/j.csbj.2019.12.013_b0445) 2007; 120
Lee-Six (10.1016/j.csbj.2019.12.013_b0175) 2018; 561
Liu (10.1016/j.csbj.2019.12.013_b0540) 2018; 553
Schuster-Böckler (10.1016/j.csbj.2019.12.013_b0870) 2012; 488
Lehner (10.1016/j.csbj.2019.12.013_b0035) 2007
Sczepanski (10.1016/j.csbj.2019.12.013_b0340) 2010; 107
Ramon (10.1016/j.csbj.2019.12.013_b0275) 1999; 31
Cadet (10.1016/j.csbj.2019.12.013_b0200) 2017; 107
Reuter (10.1016/j.csbj.2019.12.013_b0015) 2010; 49
Supek (10.1016/j.csbj.2019.12.013_b0565) 2015; 521
Hamilton (10.1016/j.csbj.2019.12.013_b0240) 2001; 29
Yamaguchi (10.1016/j.csbj.2019.12.013_b0250) 1996; 17
Zhou (10.1016/j.csbj.2019.12.013_b0515) 2013; 288
Strom (10.1016/j.csbj.2019.12.013_b0440) 2017; 547
Boiteux (10.1016/j.csbj.2019.12.013_b0335) 2004; 3
Allgayer (10.1016/j.csbj.2019.12.013_b0145) 2016; 44
Cooper (10.1016/j.csbj.2019.12.013_b0710) 1989; 83
Larson (10.1016/j.csbj.2019.12.013_b0435) 2017; 547
Jiang (10.1016/j.csbj.2019.12.013_b0595) 2017; 89
Frigola (10.1016/j.csbj.2019.12.013_b0560) 2017; 49
Krishnamurthy (10.1016/j.csbj.2019.12.013_b0400) 2008; 47
Markkanen (10.1016/j.csbj.2019.12.013_b0720) 2013; 4
Menoni (10.1016/j.csbj.2019.12.013_b0485) 2017; 107
Supek (10.1016/j.csbj.2019.12.013_b0570) 2019; 102647
Ming (10.1016/j.csbj.2019.12.013_b0605) 2014; 136
Bhakat (10.1016/j.csbj.2019.12.013_b0650) 2003; 22
Fleming (10.1016/j.csbj.2019.12.013_b0125) 2017; 56
Ravanat (10.1016/j.csbj.2019.12.013_b0415) 2002; 23
Birben (10.1016/j.csbj.2019.12.013_b0270) 2012; 5
Ding (10.1016/j.csbj.2019.12.013_b0075) 2017; 139
Kim (10.1016/j.csbj.2019.12.013_b0585) 2012; 13
Wu (10.1016/j.csbj.2019.12.013_b0080) 2018
von Zglinicki (10.1016/j.csbj.2019.12.013_b0140) 2002; 27
Pastukh (10.1016/j.csbj.2019.12.013_b0300) 2015; 309
Cogoi (10.1016/j.csbj.2019.12.013_b0685) 2014; 42
Duncan (10.1016/j.csbj.2019.12.013_b0705) 1980; 287
Kucab (10.1016/j.csbj.2019.12.013_b0770) 2019; 177
Poetsch (10.1016/j.csbj.2019.12.013_b0085) 2018; 19
Inoue (10.1016/j.csbj.2019.12.013_b0220) 1998; 273
Amouroux (10.1016/j.csbj.2019.12.013_b0450) 2010; 38
Christensen (10.1016/j.csbj.2019.12.013_b0855) 2019; 10
Martincorena (10.1016/j.csbj.2019.12.013_b0055) 2015; 349
Finkel (10.1016/j.csbj.2019.12.013_b0060) 2007; 448
Pastukh (10.1016/j.csbj.2019.12.013_b0095) 2007; 43
Atamna (10.1016/j.csbj.2019.12.013_b0370) 2000; 97
Margolin (10.1016/j.csbj.2019.12.013_b0500) 2008; 283
Mitchell (10.1016/j.csbj.2019.12.013_b0390) 2002; 75
Yin (10.1016/j.csbj.2019.12.013_b0690) 2017; 356
Fleming (10.1016/j.csbj.2019.12.013_b0680) 2019; 32
Khobta (10.1016/j.csbj.2019.12.013_b0285) 2010; 38
Wang (10.1016/j.csbj.2019.12.013_b0310) 2018; 75
Rhee (10.1016/j.csbj.2019.12.013_b0510) 2011; 10
Kasymov (10.1016/j.csbj.2019.12.013_b0615) 2013; 587
Ward (10.1016/j.csbj.2019.12.013_b0030) 2000; 65
Yamamori (10.1016/j.csbj.2019.12.013_b0655) 2010; 38
Gonzalez-Perez (10.1016/j.csbj.2019.12.013_b0765) 2019; 177
Satou (10.1016/j.csbj.2019.12.013_b0230) 2009; 8
Pich (10.1016/j.csbj.2019.12.013_b0850) 2019; 51
Blake (10.1016/j.csbj.2019.12.013_b0470) 2016; 5
Pich (10.1016/j.csbj.2019.12.013_b0105) 2018; 175
Alexandrov (10.1016/j.csbj.2019.12.013_b0785) 2013; 500
Fleming (10.1016/j.csbj.2019.12.013_b0305) 2017; 114
Lindahl (10.1016/j.csbj.2019.12.013_b0210) 1993; 362
David (10.1016/j.csbj.2019.12.013_b0235) 2007; 447
Cadet (10.1016/j.csbj.2019.12.013_b0190) 2006; 2
Sedletska (10.1016/j.csbj.2019.12.013_b0330) 2013; 41
Crow (10.1016/j.csbj.2019.12.013_b0045) 2000
Senthilkumar (10.1016/j.csbj.2019.12.013_b0505) 2003; 125
Lindahl (10.1016/j.csbj.2019.12.013_b0245) 1972; 11
Ruchko (10.1016/j.csbj.2019.12.013_b0295) 2009; 46
Zou (10.1016/j.csbj.2019.12.013_b0810) 2018; 9
Liu (10.1016/j.csbj.2019.12.013_b0885) 2012; 14
References_xml – volume: 27
  start-page: 1674
  year: 2017
  end-page: 1684
  ident: b0575
  article-title: Genome-wide maps of alkylation damage, repair, and mutagenesis in yeast reveal mechanisms of mutational heterogeneity
  publication-title: Genome Res
– volume: 19
  start-page: 82
  year: 2005
  end-page: 84
  ident: b0255
  article-title: Establishing the background level of base oxidation in human lymphocyte DNA
  publication-title: FASEB J
– volume: 69
  start-page: 840
  year: 2018
  end-page: 850
  ident: b0800
  article-title: Mutational landscape of a chemically-induced mouse model of liver cancer
  publication-title: J Hepatol
– volume: 28
  start-page: 1264
  year: 2018
  end-page: 1271
  ident: b0530
  article-title: Noncanonical secondary structures arising from non-B DNA motifs are determinants of mutagenesis
  publication-title: Genome Res
– volume: 97
  start-page: 686
  year: 2000
  end-page: 691
  ident: b0370
  article-title: A method for detecting abasic sites in living cells: age-dependent changes in base excision repair
  publication-title: Proc Natl Acad Sci USA
– volume: 47
  start-page: 5049
  year: 2019
  end-page: 5060
  ident: b0545
  article-title: Location dependence of the transcriptional response of a potential G-quadruplex in gene promoters under oxidative stress
  publication-title: Nucleic Acids Res
– volume: 207
  start-page: 379
  year: 2010
  end-page: 390
  ident: b0625
  article-title: Proteins of nucleotide and base excision repair pathways interact in mitochondria to protect from loss of subcutaneous fat, a hallmark of aging
  publication-title: J Exp Med
– volume: 75
  start-page: 117
  year: 2019
  end-page: 130.e6
  ident: b0135
  article-title: Targeted and persistent 8-oxoguanine base damage at telomeres promotes telomere loss and crisis
  publication-title: Mol Cell
– volume: 45
  start-page: 1113
  year: 2013
  end-page: 1120
  ident: b0165
  article-title: The Cancer Genome Atlas Pan-Cancer analysis project
  publication-title: Nat Genet
– volume: 42
  start-page: 8379
  year: 2014
  end-page: 8388
  ident: b0685
  article-title: HRAS is silenced by two neighboring G-quadruplexes and activated by MAZ, a zinc-finger transcription factor with DNA unfolding property
  publication-title: Nucleic Acids Res
– volume: 24
  start-page: 1624
  year: 2014
  end-page: 1636
  ident: b0805
  article-title: elegans whole-genome sequencing reveals mutational signatures related to carcinogens and DNA repair deficiency
  publication-title: Genome Res
– volume: 67
  start-page: 162
  year: 2017
  ident: b0825
  article-title: Noncanonical mismatch repair as a source of genomic instability in human cells
  publication-title: Mol Cell
– volume: 40
  start-page: 483
  year: 1985
  end-page: 484
  ident: b0725
  article-title: Apurinic sites as mutagenic intermediates
  publication-title: Cell
– volume: 9
  year: 2014
  ident: b0130
  article-title: Oxidative stress induces persistent telomeric DNA damage responsible for nuclear morphology change in mammalian cells
  publication-title: PLoS One
– volume: 26
  start-page: 15
  year: 2015
  end-page: 22
  ident: b0350
  article-title: Inactivation of a common OGG1 variant by TNF-alpha in mammalian cells
  publication-title: DNA Repair (Amst)
– volume: 8
  start-page: 953
  year: 2009
  end-page: 960
  ident: b0455
  article-title: Localization of X-ray cross complementing gene 1 protein in the nuclear matrix is controlled by casein kinase II-dependent phosphorylation in response to oxidative damage
  publication-title: DNA Repair (Amst)
– volume: 18
  start-page: 696
  year: 2018
  end-page: 705
  ident: b0590
  article-title: The COSMIC Cancer Gene Census: describing genetic dysfunction across all human cancers
  publication-title: Nat Rev Cancer
– volume: 49
  start-page: 1603
  year: 2010
  end-page: 1616
  ident: b0015
  article-title: Oxidative stress, inflammation, and cancer: how are they linked
  publication-title: Free Radic Biol Med
– volume: 587
  start-page: 3129
  year: 2013
  end-page: 3134
  ident: b0615
  article-title: Excision of 8-oxoguanine from methylated CpG dinucleotides by human 8-oxoguanine DNA glycosylase
  publication-title: FEBS Lett
– volume: 107
  start-page: 159
  year: 2017
  end-page: 169
  ident: b0485
  article-title: Chromatin associated mechanisms in base excision repair – nucleosome remodeling and DNA transcription, two key players
  publication-title: Free Radic Biol Med
– volume: 34
  start-page: 1196
  year: 2006
  end-page: 1204
  ident: b0535
  article-title: Gamma radiation increases endonuclease-dependent L1 retrotransposition in a cultured cell assay
  publication-title: Nucleic Acids Res
– volume: 43
  start-page: 649
  year: 2011
  end-page: 662
  ident: b0830
  article-title: The hMsh2-hMsh6 complex acts in concert with monoubiquitinated PCNA and Pol η in response to oxidative DNA damage in human cells
  publication-title: Mol Cell
– volume: 3
  start-page: 1457
  year: 2004
  end-page: 1468
  ident: b0290
  article-title: Transcription activities at 8-oxoG lesions in DNA
  publication-title: DNA Repair (Amst)
– volume: 42
  start-page: 7708
  year: 2014
  end-page: 7719
  ident: b0525
  article-title: Human AP endonuclease inefficiently removes abasic sites within G4 structures compared to duplex DNA
  publication-title: Nucleic Acids Res
– volume: 23
  start-page: 547
  year: 2016
  end-page: 559
  ident: b0775
  article-title: Artifactual mutations resulting from DNA lesions limit detection levels in ultrasensitive sequencing applications
  publication-title: DNA Res
– volume: 42
  start-page: 1552
  year: 2007
  end-page: 1560
  ident: b0225
  article-title: Mutagenic effects of 8-hydroxy-dGTP in live mammalian cells
  publication-title: Free Radic Biol Med
– year: 2017
  ident: b0320
  article-title: G-Quadruplexes: prediction, characterization, and biological application
  publication-title: Trends Biotechnol
– volume: 102647
  year: 2019
  ident: b0570
  article-title: Scales and mechanisms of somatic mutation rate variation across the human genome
  publication-title: DNA Repair (Amst)
– volume: 448
  start-page: 767
  year: 2007
  end-page: 774
  ident: b0060
  article-title: The common biology of cancer and ageing
  publication-title: Nature
– volume: 46
  start-page: 352
  year: 2009
  end-page: 359
  ident: b0295
  article-title: Hypoxia-induced oxidative base modifications in the VEGF hypoxia-response element are associated with transcriptionally active nucleosomes
  publication-title: Free Radic Biol Med
– volume: 2
  start-page: 365
  year: 2006
  end-page: 366
  ident: b0195
  article-title: Paradoxical hotspots for guanine oxidation by a chemical mediator of inflammation
  publication-title: Nat Chem Biol
– volume: 10
  start-page: 1789
  year: 1996
  end-page: 1791
  ident: b0395
  article-title: Determination of 8-hydroxydeoxyguanosine in biological tissue by liquid chromatography/electrospray ionization-mass spectrometry/mass spectrometry
  publication-title: Rapid Commun Mass Spectrom
– volume: 5
  start-page: 9
  year: 2012
  end-page: 19
  ident: b0270
  article-title: Oxidative stress and antioxidant defense
  publication-title: World Allergy Organ J
– volume: 75
  start-page: 257
  year: 2002
  end-page: 265
  ident: b0390
  article-title: Development and application of a novel immunoassay for measuring oxidative DNA damage in the environment
  publication-title: Photochem Photobiol
– volume: 362
  start-page: 911
  year: 2018
  end-page: 917
  ident: b0185
  article-title: Somatic mutant clones colonize the human esophagus with age
  publication-title: Science
– volume: 10
  start-page: 34
  year: 2011
  end-page: 44
  ident: b0510
  article-title: Factors that influence telomeric oxidative base damage and repair by DNA glycosylase OGG1
  publication-title: DNA Repair (Amst)
– volume: 39
  start-page: 2
  year: 2017
  ident: b0740
  article-title: Mutations induced by 8-hydroxyguanine (8-oxo-7,8-dihydroguanine), a representative oxidized base, in mammalian cells
  publication-title: Genes Environ
– volume: 43
  start-page: 1616
  year: 2007
  end-page: 1626
  ident: b0095
  article-title: Sequence-specific oxidative base modifications in hypoxia-inducible genes
  publication-title: Free Radic Biol Med
– volume: 547
  start-page: 241
  year: 2017
  end-page: 245
  ident: b0440
  article-title: Phase separation drives heterochromatin domain formation
  publication-title: Nature
– volume: 49
  start-page: 1684
  year: 2017
  end-page: 1692
  ident: b0560
  article-title: Reduced mutation rate in exons due to differential mismatch repair
  publication-title: Nat Genet
– volume: 464
  start-page: 993
  year: 2010
  end-page: 998
  ident: b0160
  article-title: International network of cancer genome projects
  publication-title: Nature
– year: 2000
  ident: b0045
  article-title: The origins, patterns and implications of human spontaneous mutation
  publication-title: Nat Rev Genet
– volume: 17
  start-page: 2419
  year: 1996
  end-page: 2422
  ident: b0250
  article-title: Increased 8-hydroxyguanine levels in DNA and its repair activity in rat kidney after administration of a renal carcinogen, ferric nitrilotriacetate
  publication-title: Carcinogenesis
– volume: 9
  start-page: 604
  year: 2010
  end-page: 616
  ident: b0020
  article-title: Oxygen as a friend and enemy: How to combat the mutational potential of 8-oxo-guanine
  publication-title: DNA Repair (Amst)
– volume: 349
  start-page: 431
  year: 1991
  end-page: 434
  ident: b0715
  article-title: Insertion of specific bases during DNA synthesis past the oxidation-damaged base 8-oxodG
  publication-title: Nature
– volume: 14
  start-page: 7400
  year: 2012
  end-page: 7410
  ident: b0885
  article-title: Proton-coupled hole hopping in nucleosomal and free DNA initiated by site-specific hole injection
  publication-title: Phys Chem Chem Phys
– volume: 19
  start-page: 300
  year: 2006
  end-page: 309
  ident: b0385
  article-title: Determination of apurinic/apyrimidinic lesions in DNA with high-performance liquid chromatography and tandem mass spectrometry
  publication-title: Chem Res Toxicol
– volume: 356
  year: 2017
  ident: b0690
  article-title: Impact of cytosine methylation on DNA binding specificities of human transcription factors
  publication-title: Science
– volume: 21
  start-page: 329
  year: 1972
  end-page: 342
  ident: b0025
  article-title: Protection of DNA molecules of cultured mammalian cells from radiation-induced single-strand scissions by various alcohols and SH compounds
  publication-title: Int J Radiat Biol Relat Stud Phys Chem Med
– volume: 8
  start-page: 637
  year: 2009
  end-page: 642
  ident: b0230
  article-title: Involvement of specialized DNA polymerases in mutagenesis by 8-hydroxy-dGTP in human cells
  publication-title: DNA Repair (Amst)
– volume: 177
  start-page: 101
  year: 2019
  end-page: 114
  ident: b0765
  article-title: Local determinants of the mutational landscape of the human genome
  publication-title: Cell
– volume: 136
  start-page: 4223
  year: 2014
  end-page: 4235
  ident: b0605
  article-title: Mapping structurally defined guanine oxidation products along DNA duplexes: influence of local sequence context and endogenous cytosine methylation
  publication-title: J Am Chem Soc
– volume: 273
  start-page: 11069
  year: 1998
  end-page: 11074
  ident: b0220
  article-title: Induction of chromosomal gene mutations in Escherichia coli by direct incorporation of oxidatively damaged nucleotides. New evaluation method for mutagenesis by damaged DNA precursors in vivo
  publication-title: J. Biol. Chem.
– volume: 12
  start-page: 2417
  year: 2017
  end-page: 2426
  ident: b0315
  article-title: 8-Oxo-7,8-dihydroguanine in the context of a gene promoter g-quadruplex is an on-off switch for transcription
  publication-title: ACS Chem Biol
– volume: 47
  start-page: 1038
  year: 2015
  end-page: 1046
  ident: b0750
  article-title: Whole-genome sequencing provides new insights into the clonal architecture of Barrett’s esophagus and esophageal adenocarcinoma
  publication-title: Nat Genet
– volume: 119
  start-page: 2043
  year: 2019
  end-page: 2086
  ident: b0205
  article-title: Singlet molecular oxygen reactions with nucleic acids, lipids, and proteins
  publication-title: Chem Rev
– volume: 98
  start-page: 1221
  year: 1998
  end-page: 1262
  ident: b0405
  article-title: Chemistry of glycosylases and endonucleases involved in base-excision repair
  publication-title: Chem Rev
– volume: 521
  start-page: 81
  year: 2015
  end-page: 84
  ident: b0565
  article-title: Differential DNA mismatch repair underlies mutation rate variation across the human genome
  publication-title: Nature
– year: 2019
  ident: b0820
  article-title: Mutational signatures are jointly shaped by DNA damage and repair
  publication-title: bioRxiv
– reference: Poetsch A.R. AP-seq, a method to measure apurinic sites and small base adducts genome-wide. Methods in Molecular Biology - The Nucleus, 3rd edition (Springer) 2020.
– volume: 319
  start-page: 202
  year: 2008
  end-page: 206
  ident: b0700
  article-title: DNA oxidation as triggered by H3K9me2 demethylation drives estrogen-induced gene expression
  publication-title: Science
– volume: 3
  start-page: 483
  year: 2004
  end-page: 494
  ident: b0150
  article-title: Effect of 8-oxoguanine on transcription elongation by T7 RNA polymerase and mammalian RNA polymerase II
  publication-title: DNA Repair (Amst)
– volume: 75
  start-page: 3741
  year: 2018
  end-page: 3750
  ident: b0310
  article-title: The roles of base excision repair enzyme OGG1 in gene expression
  publication-title: Cell Mol Life Sci
– volume: 114
  start-page: 2604
  year: 2017
  end-page: 2609
  ident: b0305
  article-title: Oxidative DNA damage is epigenetic by regulating gene transcription via base excision repair
  publication-title: Proc Natl Acad Sci U S A
– volume: 124
  start-page: 3586
  year: 2002
  end-page: 3590
  ident: b0600
  article-title: Regulation of one-electron oxidation rate of guanine by base pairing with cytosine derivatives
  publication-title: J Am Chem Soc
– volume: 21
  start-page: 5943
  year: 2002
  end-page: 5952
  ident: b0490
  article-title: DNA base excision repair of uracil residues in reconstituted nucleosome core particles
  publication-title: EMBO J
– volume: 29
  start-page: 1834
  year: 2009
  end-page: 1854
  ident: b0660
  article-title: APE1/Ref-1 interacts with NPM1 within nucleoli and plays a role in the rRNA quality control process
  publication-title: Mol Cell Biol
– volume: 45
  start-page: 478
  year: 2013
  end-page: 486
  ident: b0755
  article-title: Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity
  publication-title: Nat Genet
– volume: 32
  start-page: 899
  year: 2019
  end-page: 909
  ident: b0680
  article-title: Oxidative modification of guanine in a potential Z-DNA-forming sequence of a gene promoter impacts gene expression
  publication-title: Chem Res Toxicol
– volume: 12
  start-page: 1152
  year: 2013
  end-page: 1158
  ident: b0115
  article-title: DNA modifications repaired by base excision repair are epigenetic
  publication-title: DNA Repair (Amst)
– volume: 27
  start-page: 339
  year: 2002
  end-page: 344
  ident: b0140
  article-title: Oxidative stress shortens telomeres
  publication-title: Trends Biochem Sci
– volume: 8
  year: 2019
  ident: b0040
  article-title: Large, three-generation human families reveal post-zygotic mosaicism and variability in germline mutation accumulation
  publication-title: Elife
– volume: 3
  start-page: 89
  year: 2007
  ident: b0645
  article-title: Large-scale mapping of human protein-protein interactions by mass spectrometry
  publication-title: Mol Syst Biol
– volume: 547
  start-page: 236
  year: 2017
  end-page: 240
  ident: b0435
  article-title: Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin
  publication-title: Nature
– volume: 290
  start-page: 22520
  year: 2015
  end-page: 22531
  ident: b0635
  article-title: CUX2 protein functions as an accessory factor in the repair of oxidative DNA damage
  publication-title: J Biol Chem
– volume: 7
  start-page: 11383
  year: 2016
  ident: b0880
  article-title: The topography of mutational processes in breast cancer genomes
  publication-title: Nat Commun
– volume: 5
  start-page: 5224
  year: 2014
  ident: b0760
  article-title: Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis
  publication-title: Nat Commun
– volume: 47
  start-page: 221
  year: 2019
  end-page: 236
  ident: b0090
  article-title: Genome-wide mapping of 8-oxo-7,8-dihydro-2′-deoxyguanosine reveals accumulation of oxidatively-generated damage at DNA replication origins within transcribed long genes of mammalian cells
  publication-title: Nucleic Acids Res
– volume: 10
  start-page: 4571
  year: 2019
  ident: b0855
  article-title: 5-Fluorouracil treatment induces characteristic T>G mutations in human cancer
  publication-title: Nat Commun
– volume: 24
  start-page: 1751
  year: 2014
  end-page: 1764
  ident: b0860
  article-title: Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition
  publication-title: Genome Res
– volume: 38
  start-page: 832
  year: 2010
  end-page: 845
  ident: b0655
  article-title: SIRT1 deacetylates APE1 and regulates cellular base excision repair
  publication-title: Nucleic Acids Res
– volume: 83
  start-page: 181
  year: 1989
  end-page: 188
  ident: b0710
  article-title: Cytosine methylation and the fate of CpG dinucleotides in vertebrate genomes
  publication-title: Hum Genet
– volume: 11
  start-page: 3610
  year: 1972
  end-page: 3618
  ident: b0245
  article-title: Rate of depurination of native deoxyribonucleic acid
  publication-title: Biochemistry
– volume: 285
  start-page: 38534
  year: 2010
  end-page: 38542
  ident: b0465
  article-title: The ATM cofactor ATMIN protects against oxidative stress and accumulation of DNA damage in the aging brain
  publication-title: J Biol Chem
– volume: 13
  start-page: R69
  year: 2012
  ident: b0410
  article-title: Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase
  publication-title: Genome Biol
– volume: 349
  start-page: 1483
  year: 2015
  end-page: 1489
  ident: b0055
  article-title: Somatic mutation in cancer and normal cells
  publication-title: Science
– volume: 9
  start-page: 15618
  year: 2019
  ident: b0100
  article-title: 8-OxoG in GC-rich Sp1 binding sites enhances gene transcription during adipose tissue development in juvenile mice
  publication-title: Sci Rep
– volume: 139
  start-page: 10359
  year: 2017
  end-page: 10364
  ident: b0265
  article-title: 5-Formyl- and 5-carboxydeoxycytidines do not cause accumulation of harmful repair intermediates in stem cells
  publication-title: J Am Chem Soc
– volume: 100
  start-page: 7465
  year: 2003
  end-page: 7470
  ident: b0475
  article-title: Suppressed catalytic activity of base excision repair enzymes on rotationally positioned uracil in nucleosomes
  publication-title: Proc Natl Acad Sci USA
– volume: 9
  start-page: 1744
  year: 2018
  ident: b0810
  article-title: Validating the concept of mutational signatures with isogenic cell models
  publication-title: Nat Commun
– volume: 19
  start-page: 129
  year: 2018
  ident: b0110
  article-title: Mutational signature distribution varies with DNA replication timing and strand asymmetry
  publication-title: Genome Biol
– volume: 177
  start-page: 821
  year: 2019
  end-page: 836.e16
  ident: b0770
  article-title: A Compendium of Mutational Signatures of Environmental Agents
  publication-title: Cell
– volume: 286
  start-page: 44679
  year: 2011
  end-page: 44690
  ident: b0630
  article-title: Poly(ADP-ribose) polymerase 1 (PARP-1) binds to 8-oxoguanine-DNA glycosylase (OGG1)
  publication-title: J Biol Chem
– volume: 362
  start-page: 709
  year: 1993
  end-page: 715
  ident: b0210
  article-title: Instability and decay of the primary structure of DNA
  publication-title: Nature
– volume: 31
  start-page: 3703
  year: 1992
  end-page: 3708
  ident: b0365
  article-title: A novel, sensitive, and specific assay for abasic sites, the most commonly produced DNA lesion
  publication-title: Biochemistry
– volume: 238
  start-page: 98
  year: 2016
  end-page: 108
  ident: b0845
  article-title: Adenoma development in familial adenomatous polyposis and MUTYH-associated polyposis: somatic landscape and driver genes
  publication-title: J Pathol
– volume: 59
  start-page: 82
  year: 2017
  end-page: 105
  ident: b0005
  article-title: Not breathing is not an option: How to deal with oxidative DNA damage
  publication-title: DNA Repair (Amst)
– volume: 538
  start-page: 260
  year: 2016
  end-page: 264
  ident: b0170
  article-title: Tissue-specific mutation accumulation in human adult stem cells during life
  publication-title: Nature
– volume: 22
  start-page: 6299
  year: 2003
  end-page: 6309
  ident: b0650
  article-title: Role of acetylated human AP-endonuclease (APE1/Ref-1) in regulation of the parathyroid hormone gene
  publication-title: EMBO J
– volume: 287
  start-page: 560
  year: 1980
  end-page: 561
  ident: b0705
  article-title: Mutagenic deamination of cytosine residues in DNA
  publication-title: Nature
– volume: 41
  year: 2013
  ident: b0420
  article-title: Discovery and characterization of artifactual mutations in deep coverage targeted capture sequencing data due to oxidative DNA damage during sample preparation
  publication-title: Nucleic Acids Res
– volume: 19
  start-page: 215
  year: 2018
  ident: b0085
  article-title: Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis
  publication-title: Genome Biol
– volume: 288
  start-page: 27263
  year: 2013
  end-page: 27272
  ident: b0515
  article-title: Neil3 and NEIL1 DNA glycosylases remove oxidative damages from quadruplex DNA and exhibit preferences for lesions in the telomeric sequence context
  publication-title: J Biol Chem
– volume: 11
  year: 2016
  ident: b0120
  article-title: Gene-specific assessment of guanine oxidation as an epigenetic modulator for cardiac specification of mouse embryonic stem cells
  publication-title: PLoS One
– volume: 13
  start-page: 204
  year: 2012
  end-page: 214
  ident: b0585
  article-title: Transcription as a source of genome instability
  publication-title: Nat Rev Genet
– volume: 46
  start-page: 661
  year: 2018
  end-page: 676
  ident: b0520
  article-title: The regulatory G4 motif of the Kirsten ras (KRAS) gene is sensitive to guanine oxidation: implications on transcription
  publication-title: Nucleic Acids Res
– volume: 500
  start-page: 415
  year: 2013
  end-page: 421
  ident: b0785
  article-title: Signatures of mutational processes in human cancer
  publication-title: Nature
– volume: 355
  start-page: 273
  year: 1992
  end-page: 275
  ident: b0215
  article-title: MutT protein specifically hydrolyses a potent mutagenic substrate for DNA synthesis
  publication-title: Nature
– volume: 38
  start-page: 2878
  year: 2010
  end-page: 2890
  ident: b0450
  article-title: Oxidative stress triggers the preferential assembly of base excision repair complexes on open chromatin regions
  publication-title: Nucleic Acids Res
– volume: 41
  start-page: 9339
  year: 2013
  end-page: 9348
  ident: b0330
  article-title: Replication fork collapse is a major cause of the high mutation frequency at three-base lesion clusters
  publication-title: Nucleic Acids Res
– volume: 359
  start-page: 555
  year: 2018
  end-page: 559
  ident: b0070
  article-title: Aging and neurodegeneration are associated with increased mutations in single human neurons
  publication-title: Science
– volume: 153
  start-page: 590
  year: 2013
  end-page: 600
  ident: b0555
  article-title: The histone mark H3K36me3 regulates human DNA mismatch repair through its interaction with MutSα
  publication-title: Cell
– volume: 120
  start-page: S130
  year: 2011
  end-page: S145
  ident: b0260
  article-title: Endogenous versus exogenous DNA adducts: their role in carcinogenesis, epidemiology, and risk assessment
  publication-title: Toxicol Sci
– volume: 3
  start-page: 1
  year: 2004
  end-page: 12
  ident: b0335
  article-title: Abasic sites in DNA: repair and biological consequences in Saccharomyces cerevisiae
  publication-title: DNA Repair (Amst)
– volume: 23
  start-page: 1911
  year: 2002
  end-page: 1918
  ident: b0415
  article-title: Cellular background level of 8-oxo-7,8-dihydro-2′-deoxyguanosine: an isotope based method to evaluate artefactual oxidation of DNA during its extraction and subsequent work-up
  publication-title: Carcinogenesis
– volume: 11
  start-page: 629
  year: 2019
  end-page: 637
  ident: b0155
  article-title: Sequencing abasic sites in DNA at single-nucleotide resolution
  publication-title: Nat Chem
– volume: 561
  start-page: 473
  year: 2018
  end-page: 478
  ident: b0175
  article-title: Population dynamics of normal human blood inferred from somatic mutations
  publication-title: Nature
– volume: 322859
  year: 2018
  ident: b0795
  article-title: The repertoire of mutational signatures in human cancer
  publication-title: bioRxiv
– volume: 170
  start-page: 534
  year: 2017
  end-page: 547.e23
  ident: b0840
  article-title: Clustered mutation signatures reveal that error-prone DNA repair targets mutations to active genes
  publication-title: Cell
– volume: 4
  start-page: 18
  year: 2013
  ident: b0720
  article-title: MUTYH DNA glycosylase: the rationale for removing undamaged bases from the DNA
  publication-title: Front Genet
– volume: 47
  start-page: 1043
  year: 2008
  end-page: 1050
  ident: b0400
  article-title: Efficient removal of formamidopyrimidines by 8-oxoguanine glycosylases
  publication-title: Biochemistry
– volume: 58
  start-page: 222
  year: 1998
  end-page: 225
  ident: b0375
  article-title: Highly sensitive apurinic/apyrimidinic site assay can detect spontaneous and chemically induced depurination under physiological conditions
  publication-title: Cancer Res
– volume: 2
  start-page: 348
  year: 2006
  end-page: 349
  ident: b0190
  article-title: One-electron oxidation of DNA and inflammation processes
  publication-title: Nat Chem Biol
– volume: 29
  start-page: 2117
  year: 2001
  end-page: 2126
  ident: b0240
  article-title: A reliable assessment of 8-oxo-2-deoxyguanosine levels in nuclear and mitochondrial DNA using the sodium iodide method to isolate DNA
  publication-title: Nucleic Acids Res
– volume: 20
  start-page: 1000
  year: 2014
  end-page: 1037
  ident: b0010
  article-title: Are reactive oxygen species always detrimental to pathogens
  publication-title: Antioxid Redox Signal
– volume: 168
  start-page: 644
  year: 2017
  end-page: 656
  ident: b0050
  article-title: Endogenous DNA damage as a source of genomic instability in cancer
  publication-title: Cell
– volume: 289
  start-page: 13996
  year: 2014
  end-page: 14008
  ident: b0610
  article-title: Base excision repair of tandem modifications in a methylated CpG dinucleotide
  publication-title: J Biol Chem
– volume: 169
  start-page: 1328
  year: 2006
  end-page: 1342
  ident: b0425
  article-title: Contrasting genome-wide distribution of 8-hydroxyguanine and acrolein-modified adenine during oxidative stress-induced renal carcinogenesis
  publication-title: Am J Pathol
– volume: 56
  start-page: 75
  year: 2017
  end-page: 83
  ident: b0125
  article-title: 8-Oxo-7,8-dihydroguanine, friend and foe: Epigenetic-like regulator versus initiator of mutagenesis
  publication-title: DNA Repair (Amst)
– volume: 22
  start-page: 4518
  year: 1983
  end-page: 4526
  ident: b0730
  article-title: Insertion of nucleotides opposite apurinic/apyrimidinic sites in deoxyribonucleic acid during in vitro synthesis: uniqueness of adenine nucleotides
  publication-title: Biochemistry
– volume: 447
  start-page: 941
  year: 2007
  end-page: 950
  ident: b0235
  article-title: Base-excision repair of oxidative DNA damage
  publication-title: Nature
– volume: 58
  start-page: 371
  year: 2015
  end-page: 386
  ident: b0550
  article-title: High-resolution chromatin dynamics during a yeast stress response
  publication-title: Mol Cell
– volume: 149
  start-page: 979
  year: 2012
  end-page: 993
  ident: b0790
  article-title: Mutational processes molding the genomes of 21 breast cancers
  publication-title: Cell
– volume: 139
  start-page: 2569
  year: 2017
  end-page: 2572
  ident: b0075
  article-title: Sequencing the mouse genome for the oxidatively modified base 8-oxo-7,8-dihydroguanine by OG-seq
  publication-title: J Am Chem Soc
– volume: 38
  start-page: 4285
  year: 2010
  end-page: 4295
  ident: b0285
  article-title: Gene silencing induced by oxidative DNA base damage: association with local decrease of histone H4 acetylation in the promoter region
  publication-title: Nucleic Acids Res
– volume: 27
  start-page: 5949
  year: 2007
  end-page: 5956
  ident: b0480
  article-title: ATP-dependent chromatin remodeling is required for base excision repair in conventional but not in variant H2A.Bbd nucleosomes
  publication-title: Mol Cell Biol
– volume: 31
  start-page: 167
  year: 2008
  end-page: 177
  ident: b0460
  article-title: ATM signaling facilitates repair of DNA double-strand breaks associated with heterochromatin
  publication-title: Mol Cell
– volume: 283
  start-page: 35569
  year: 2008
  end-page: 35578
  ident: b0500
  article-title: DNA sequence context as a determinant of the quantity and chemistry of guanine oxidation produced by hydroxyl radicals and one-electron oxidants
  publication-title: J Biol Chem
– volume: 30
  start-page: 823
  year: 2002
  end-page: 829
  ident: b0665
  article-title: Human AP-endonuclease 1 and hnRNP-L interact with a nCaRE-like repressor element in the AP-endonuclease 1 promoter
  publication-title: Nucleic Acids Res
– volume: 26
  start-page: 7430
  year: 2006
  end-page: 7436
  ident: b0345
  article-title: Redox regulation of human OGG1 activity in response to cellular oxidative stress
  publication-title: Mol Cell Biol
– volume: 12
  year: 2014
  ident: b0640
  article-title: RAS transformation requires CUX1-dependent repair of oxidative DNA damage
  publication-title: PLoS Biol
– volume: 51
  start-page: 1732
  year: 2019
  end-page: 1740
  ident: b0850
  article-title: The mutational footprints of cancer therapies
  publication-title: Nat Genet
– volume: 65
  start-page: 377
  year: 2000
  end-page: 382
  ident: b0030
  article-title: Complexity of damage produced by ionizing radiation
  publication-title: Cold Spring Harb Symp Quant Biol
– volume: 379
  start-page: 17
  year: 2008
  end-page: 27
  ident: b0675
  article-title: Characterization of abasic endonuclease activity of human Ape1 on alternative substrates, as well as effects of ATP and sequence context on AP site incision
  publication-title: J Mol Biol
– volume: 94
  start-page: 3633
  year: 1997
  end-page: 3638
  ident: b0670
  article-title: AP-1 transcriptional activity is regulated by a direct association between thioredoxin and Ref-1
  publication-title: Proc Natl Acad Sci USA
– volume: 107
  start-page: 13
  year: 2017
  end-page: 34
  ident: b0200
  article-title: Formation and repair of oxidatively generated damage in cellular DNA
  publication-title: Free Radic Biol Med
– volume: 42
  start-page: 9761
  year: 2003
  end-page: 9770
  ident: b0280
  article-title: Oxidized guanine lesions as modulators of gene transcription. Altered p50 binding affinity and repair shielding by 7,8-dihydro-8-oxo-2′-deoxyguanosine lesions in the NF-kappaB promoter element
  publication-title: Biochemistry
– volume: 32
  start-page: 71
  year: 2014
  end-page: 75
  ident: b0875
  article-title: Reduced local mutation density in regulatory DNA of cancer genomes is linked to DNA repair
  publication-title: Nat Biotechnol
– volume: 485
  start-page: 95
  year: 2012
  end-page: 98
  ident: b0180
  article-title: Evidence of non-random mutation rates suggests an evolutionary risk management strategy
  publication-title: Nature
– volume: 14
  start-page: 607
  year: 2017
  end-page: 619
  ident: b0325
  article-title: Telomeres and telomerase in prostate cancer development and therapy
  publication-title: Nat Rev Urol
– year: 2007
  ident: b0035
  article-title: Biomolecular action of ionizing radiation
– volume: 20
  start-page: 50
  year: 2019
  ident: b0780
  article-title: Analysis of error profiles in deep next-generation sequencing data
  publication-title: Genome Biol
– volume: 518
  start-page: 502
  year: 2015
  end-page: 506
  ident: b0865
  article-title: Lagging-strand replication shapes the mutational landscape of the genome
  publication-title: Nature
– year: 2018
  ident: b0080
  article-title: Nucleotide-resolution genome-wide mapping of oxidative DNA damage by click-code-seq
  publication-title: J Am Chem Soc
– volume: 31
  start-page: 217
  year: 1999
  end-page: 229
  ident: b0275
  article-title: Effects of 8-oxo-7,8-dihydro-2′-deoxyguanosine on the binding of the transcription factor Sp1 to its cognate target DNA sequence (GC box)
  publication-title: Free Radic Res
– volume: 175
  start-page: 1074
  year: 2018
  end-page: 1087.e18
  ident: b0105
  article-title: Somatic and germline mutation periodicity follow the orientation of the DNA minor groove around nucleosomes
  publication-title: Cell
– volume: 309
  start-page: L1367
  year: 2015
  end-page: L1375
  ident: b0300
  article-title: An oxidative DNA “damage” and repair mechanism localized in the VEGF promoter is important for hypoxia-induced VEGF mRNA expression
  publication-title: Am J Physiol Lung Cell Mol Physiol
– volume: 21
  start-page: 603
  year: 2014
  end-page: 612
  ident: b0355
  article-title: Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus
  publication-title: DNA Res
– volume: 488
  start-page: 504
  year: 2012
  end-page: 507
  ident: b0870
  article-title: Chromatin organization is a major influence on regional mutation rates in human cancer cells
  publication-title: Nature
– volume: 5
  year: 2016
  ident: b0470
  article-title: Inactivation of the ATMIN/ATM pathway protects against glioblastoma formation
  publication-title: Elife
– volume: 44
  start-page: 7267
  year: 2016
  end-page: 7280
  ident: b0145
  article-title: Widespread transcriptional gene inactivation initiated by a repair intermediate of 8-oxoguanine
  publication-title: Nucleic Acids Res
– volume: 125
  start-page: 13658
  year: 2003
  end-page: 13659
  ident: b0505
  article-title: Mapping the sites for selective oxidation of guanines in DNA
  publication-title: J Am Chem Soc
– volume: 8
  start-page: 15760
  year: 2017
  ident: b0580
  article-title: Identification of the elementary structural units of the DNA damage response
  publication-title: Nat Commun
– volume: 107
  start-page: 22475
  year: 2010
  end-page: 22480
  ident: b0340
  article-title: Rapid DNA–protein cross-linking and strand scission by an abasic site in a nucleosome core particle
  publication-title: Proc Natl Acad Sci
– volume: 26
  start-page: 1654
  year: 2006
  end-page: 1665
  ident: b0495
  article-title: Acetylation of human 8-oxoguanine-DNA glycosylase by p300 and its role in 8-oxoguanine repair in vivo
  publication-title: Mol Cell Biol
– volume: 34
  start-page: 627
  year: 2018
  end-page: 638
  ident: b0695
  article-title: DNA modifications: naturally more error prone
  publication-title: Trends Genet
– volume: 133
  start-page: 118
  year: 2012
  end-page: 126
  ident: b0065
  article-title: Somatic mutations in aging, cancer and neurodegeneration
  publication-title: Mech Ageing Dev
– volume: 120
  start-page: 23
  year: 2007
  end-page: 32
  ident: b0445
  article-title: UVA irradiation induces relocalisation of the DNA repair protein hOGG1 to nuclear speckles
  publication-title: J Cell Sci
– volume: 272
  start-page: 13916
  year: 1997
  end-page: 13922
  ident: b0735
  article-title: Translesional synthesis on DNA templates containing a single abasic site. A mechanistic study of the “A rule”
  publication-title: J Biol Chem
– volume: 89
  start-page: 12872
  year: 2017
  end-page: 12879
  ident: b0595
  article-title: Direct LC-MS/MS detection of guanine oxidations in exon 7 of the p53 tumor suppressor gene
  publication-title: Anal Chem
– volume: 31
  start-page: 653
  year: 2017
  end-page: 668.e7
  ident: b0620
  article-title: CHD4 has oncogenic functions in initiating and maintaining epigenetic suppression of multiple tumor suppressor genes
  publication-title: Cancer Cell
– volume: 169
  start-page: 780
  year: 2017
  end-page: 791
  ident: b0430
  article-title: Lamina-associated domains: links with chromosome architecture, heterochromatin, and gene repression
  publication-title: Cell
– volume: 15
  start-page: 585
  year: 2014
  end-page: 598
  ident: b0815
  article-title: Mechanisms underlying mutational signatures in human cancers
  publication-title: Nat Rev Genet
– volume: 553
  start-page: 228
  year: 2018
  end-page: 232
  ident: b0540
  article-title: Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators
  publication-title: Nature
– volume: 5
  start-page: 821
  year: 2015
  end-page: 831
  ident: b0745
  article-title: Tracking the genomic evolution of esophageal adenocarcinoma through neoadjuvant chemotherapy
  publication-title: Cancer Discov
– volume: 239–240
  year: 2002
  ident: b0380
  article-title: Detection of NO-induced DNA lesions by the modified aldehyde reactive probe (ARP) assay
  publication-title: Nucleic Acids Res Suppl
– volume: 176
  start-page: 1282
  year: 2019
  end-page: 1294.e20
  ident: b0835
  article-title: Characterizing mutational signatures in human cancer cell lines reveals episodic APOBEC mutagenesis
  publication-title: Cell
– volume: 309
  start-page: L1367
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0300
  article-title: An oxidative DNA “damage” and repair mechanism localized in the VEGF promoter is important for hypoxia-induced VEGF mRNA expression
  publication-title: Am J Physiol Lung Cell Mol Physiol
  doi: 10.1152/ajplung.00236.2015
– volume: 547
  start-page: 241
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0440
  article-title: Phase separation drives heterochromatin domain formation
  publication-title: Nature
  doi: 10.1038/nature22989
– volume: 521
  start-page: 81
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0565
  article-title: Differential DNA mismatch repair underlies mutation rate variation across the human genome
  publication-title: Nature
  doi: 10.1038/nature14173
– volume: 114
  start-page: 2604
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0305
  article-title: Oxidative DNA damage is epigenetic by regulating gene transcription via base excision repair
  publication-title: Proc Natl Acad Sci U S A
  doi: 10.1073/pnas.1619809114
– volume: 587
  start-page: 3129
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0615
  article-title: Excision of 8-oxoguanine from methylated CpG dinucleotides by human 8-oxoguanine DNA glycosylase
  publication-title: FEBS Lett
  doi: 10.1016/j.febslet.2013.08.008
– volume: 349
  start-page: 1483
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0055
  article-title: Somatic mutation in cancer and normal cells
  publication-title: Science
  doi: 10.1126/science.aab4082
– volume: 21
  start-page: 5943
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0490
  article-title: DNA base excision repair of uracil residues in reconstituted nucleosome core particles
  publication-title: EMBO J
  doi: 10.1093/emboj/cdf581
– year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0035
– year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0080
  article-title: Nucleotide-resolution genome-wide mapping of oxidative DNA damage by click-code-seq
  publication-title: J Am Chem Soc
– volume: 120
  start-page: S130
  issue: Suppl 1
  year: 2011
  ident: 10.1016/j.csbj.2019.12.013_b0260
  article-title: Endogenous versus exogenous DNA adducts: their role in carcinogenesis, epidemiology, and risk assessment
  publication-title: Toxicol Sci
  doi: 10.1093/toxsci/kfq371
– volume: 26
  start-page: 7430
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0345
  article-title: Redox regulation of human OGG1 activity in response to cellular oxidative stress
  publication-title: Mol Cell Biol
  doi: 10.1128/MCB.00624-06
– volume: 21
  start-page: 603
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0355
  article-title: Genome-wide profiling of 8-oxoguanine reveals its association with spatial positioning in nucleus
  publication-title: DNA Res
  doi: 10.1093/dnares/dsu023
– volume: 31
  start-page: 653
  issue: 5
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0620
  article-title: CHD4 has oncogenic functions in initiating and maintaining epigenetic suppression of multiple tumor suppressor genes
  publication-title: Cancer Cell
  doi: 10.1016/j.ccell.2017.04.005
– volume: 500
  start-page: 415
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0785
  article-title: Signatures of mutational processes in human cancer
  publication-title: Nature
  doi: 10.1038/nature12477
– volume: 169
  start-page: 1328
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0425
  article-title: Contrasting genome-wide distribution of 8-hydroxyguanine and acrolein-modified adenine during oxidative stress-induced renal carcinogenesis
  publication-title: Am J Pathol
  doi: 10.2353/ajpath.2006.051280
– volume: 5
  start-page: 821
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0745
  article-title: Tracking the genomic evolution of esophageal adenocarcinoma through neoadjuvant chemotherapy
  publication-title: Cancer Discov
  doi: 10.1158/2159-8290.CD-15-0412
– volume: 31
  start-page: 167
  year: 2008
  ident: 10.1016/j.csbj.2019.12.013_b0460
  article-title: ATM signaling facilitates repair of DNA double-strand breaks associated with heterochromatin
  publication-title: Mol Cell
  doi: 10.1016/j.molcel.2008.05.017
– volume: 119
  start-page: 2043
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0205
  article-title: Singlet molecular oxygen reactions with nucleic acids, lipids, and proteins
  publication-title: Chem Rev
  doi: 10.1021/acs.chemrev.8b00554
– volume: 65
  start-page: 377
  year: 2000
  ident: 10.1016/j.csbj.2019.12.013_b0030
  article-title: Complexity of damage produced by ionizing radiation
  publication-title: Cold Spring Harb Symp Quant Biol
  doi: 10.1101/sqb.2000.65.377
– volume: 19
  start-page: 300
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0385
  article-title: Determination of apurinic/apyrimidinic lesions in DNA with high-performance liquid chromatography and tandem mass spectrometry
  publication-title: Chem Res Toxicol
  doi: 10.1021/tx0502589
– volume: 7
  start-page: 11383
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0880
  article-title: The topography of mutational processes in breast cancer genomes
  publication-title: Nat Commun
  doi: 10.1038/ncomms11383
– volume: 12
  start-page: 2417
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0315
  article-title: 8-Oxo-7,8-dihydroguanine in the context of a gene promoter g-quadruplex is an on-off switch for transcription
  publication-title: ACS Chem Biol
  doi: 10.1021/acschembio.7b00636
– volume: 58
  start-page: 222
  year: 1998
  ident: 10.1016/j.csbj.2019.12.013_b0375
  article-title: Highly sensitive apurinic/apyrimidinic site assay can detect spontaneous and chemically induced depurination under physiological conditions
  publication-title: Cancer Res
– volume: 9
  start-page: 15618
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0100
  article-title: 8-OxoG in GC-rich Sp1 binding sites enhances gene transcription during adipose tissue development in juvenile mice
  publication-title: Sci Rep
  doi: 10.1038/s41598-019-52139-z
– volume: 285
  start-page: 38534
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0465
  article-title: The ATM cofactor ATMIN protects against oxidative stress and accumulation of DNA damage in the aging brain
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M110.145896
– volume: 23
  start-page: 547
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0775
  article-title: Artifactual mutations resulting from DNA lesions limit detection levels in ultrasensitive sequencing applications
  publication-title: DNA Res
  doi: 10.1093/dnares/dsw038
– volume: 322859
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0795
  article-title: The repertoire of mutational signatures in human cancer
  publication-title: bioRxiv
– volume: 22
  start-page: 6299
  year: 2003
  ident: 10.1016/j.csbj.2019.12.013_b0650
  article-title: Role of acetylated human AP-endonuclease (APE1/Ref-1) in regulation of the parathyroid hormone gene
  publication-title: EMBO J
  doi: 10.1093/emboj/cdg595
– volume: 24
  start-page: 1624
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0805
  article-title: elegans whole-genome sequencing reveals mutational signatures related to carcinogens and DNA repair deficiency
  publication-title: Genome Res
  doi: 10.1101/gr.175547.114
– volume: 20
  start-page: 1000
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0010
  article-title: Are reactive oxygen species always detrimental to pathogens
  publication-title: Antioxid Redox Signal
  doi: 10.1089/ars.2013.5447
– volume: 133
  start-page: 118
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0065
  article-title: Somatic mutations in aging, cancer and neurodegeneration
  publication-title: Mech Ageing Dev
  doi: 10.1016/j.mad.2011.10.009
– volume: 447
  start-page: 941
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0235
  article-title: Base-excision repair of oxidative DNA damage
  publication-title: Nature
  doi: 10.1038/nature05978
– volume: 359
  start-page: 555
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0070
  article-title: Aging and neurodegeneration are associated with increased mutations in single human neurons
  publication-title: Science
  doi: 10.1126/science.aao4426
– volume: 3
  start-page: 483
  year: 2004
  ident: 10.1016/j.csbj.2019.12.013_b0150
  article-title: Effect of 8-oxoguanine on transcription elongation by T7 RNA polymerase and mammalian RNA polymerase II
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2004.01.003
– volume: 19
  start-page: 129
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0110
  article-title: Mutational signature distribution varies with DNA replication timing and strand asymmetry
  publication-title: Genome Biol
  doi: 10.1186/s13059-018-1509-y
– volume: 18
  start-page: 696
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0590
  article-title: The COSMIC Cancer Gene Census: describing genetic dysfunction across all human cancers
  publication-title: Nat Rev Cancer
  doi: 10.1038/s41568-018-0060-1
– volume: 272
  start-page: 13916
  year: 1997
  ident: 10.1016/j.csbj.2019.12.013_b0735
  article-title: Translesional synthesis on DNA templates containing a single abasic site. A mechanistic study of the “A rule”
  publication-title: J Biol Chem
  doi: 10.1074/jbc.272.21.13916
– volume: 153
  start-page: 590
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0555
  article-title: The histone mark H3K36me3 regulates human DNA mismatch repair through its interaction with MutSα
  publication-title: Cell
  doi: 10.1016/j.cell.2013.03.025
– volume: 12
  start-page: 1152
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0115
  article-title: DNA modifications repaired by base excision repair are epigenetic
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2013.10.002
– volume: 89
  start-page: 12872
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0595
  article-title: Direct LC-MS/MS detection of guanine oxidations in exon 7 of the p53 tumor suppressor gene
  publication-title: Anal Chem
  doi: 10.1021/acs.analchem.7b03487
– volume: 3
  start-page: 89
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0645
  article-title: Large-scale mapping of human protein-protein interactions by mass spectrometry
  publication-title: Mol Syst Biol
  doi: 10.1038/msb4100134
– volume: 38
  start-page: 4285
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0285
  article-title: Gene silencing induced by oxidative DNA base damage: association with local decrease of histone H4 acetylation in the promoter region
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkq170
– volume: 488
  start-page: 504
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0870
  article-title: Chromatin organization is a major influence on regional mutation rates in human cancer cells
  publication-title: Nature
  doi: 10.1038/nature11273
– volume: 13
  start-page: R69
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0410
  article-title: Genome-wide distribution of 5-formylcytosine in embryonic stem cells is associated with transcription and depends on thymine DNA glycosylase
  publication-title: Genome Biol
  doi: 10.1186/gb-2012-13-8-r69
– volume: 42
  start-page: 7708
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0525
  article-title: Human AP endonuclease inefficiently removes abasic sites within G4 structures compared to duplex DNA
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gku417
– volume: 30
  start-page: 823
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0665
  article-title: Human AP-endonuclease 1 and hnRNP-L interact with a nCaRE-like repressor element in the AP-endonuclease 1 promoter
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/30.3.823
– volume: 8
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0040
  article-title: Large, three-generation human families reveal post-zygotic mosaicism and variability in germline mutation accumulation
  publication-title: Elife
  doi: 10.7554/eLife.46922
– volume: 40
  start-page: 483
  year: 1985
  ident: 10.1016/j.csbj.2019.12.013_b0725
  article-title: Apurinic sites as mutagenic intermediates
  publication-title: Cell
  doi: 10.1016/0092-8674(85)90191-6
– volume: 97
  start-page: 686
  year: 2000
  ident: 10.1016/j.csbj.2019.12.013_b0370
  article-title: A method for detecting abasic sites in living cells: age-dependent changes in base excision repair
  publication-title: Proc Natl Acad Sci USA
  doi: 10.1073/pnas.97.2.686
– volume: 290
  start-page: 22520
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0635
  article-title: CUX2 protein functions as an accessory factor in the repair of oxidative DNA damage
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M115.651042
– volume: 42
  start-page: 1552
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0225
  article-title: Mutagenic effects of 8-hydroxy-dGTP in live mammalian cells
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2007.02.024
– volume: 139
  start-page: 10359
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0265
  article-title: 5-Formyl- and 5-carboxydeoxycytidines do not cause accumulation of harmful repair intermediates in stem cells
  publication-title: J Am Chem Soc
  doi: 10.1021/jacs.7b04131
– volume: 34
  start-page: 1196
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0535
  article-title: Gamma radiation increases endonuclease-dependent L1 retrotransposition in a cultured cell assay
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkj522
– volume: 31
  start-page: 3703
  year: 1992
  ident: 10.1016/j.csbj.2019.12.013_b0365
  article-title: A novel, sensitive, and specific assay for abasic sites, the most commonly produced DNA lesion
  publication-title: Biochemistry
  doi: 10.1021/bi00129a020
– volume: 75
  start-page: 257
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0390
  article-title: Development and application of a novel immunoassay for measuring oxidative DNA damage in the environment
  publication-title: Photochem Photobiol
  doi: 10.1562/0031-8655(2002)075<0257:DAAOAN>2.0.CO;2
– volume: 43
  start-page: 1616
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0095
  article-title: Sequence-specific oxidative base modifications in hypoxia-inducible genes
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2007.08.027
– volume: 29
  start-page: 2117
  year: 2001
  ident: 10.1016/j.csbj.2019.12.013_b0240
  article-title: A reliable assessment of 8-oxo-2-deoxyguanosine levels in nuclear and mitochondrial DNA using the sodium iodide method to isolate DNA
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/29.10.2117
– volume: 32
  start-page: 899
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0680
  article-title: Oxidative modification of guanine in a potential Z-DNA-forming sequence of a gene promoter impacts gene expression
  publication-title: Chem Res Toxicol
  doi: 10.1021/acs.chemrestox.9b00041
– volume: 485
  start-page: 95
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0180
  article-title: Evidence of non-random mutation rates suggests an evolutionary risk management strategy
  publication-title: Nature
  doi: 10.1038/nature10995
– volume: 9
  start-page: 604
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0020
  article-title: Oxygen as a friend and enemy: How to combat the mutational potential of 8-oxo-guanine
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2010.03.004
– volume: 177
  start-page: 821
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0770
  article-title: A Compendium of Mutational Signatures of Environmental Agents
  publication-title: Cell
  doi: 10.1016/j.cell.2019.03.001
– volume: 356
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0690
  article-title: Impact of cytosine methylation on DNA binding specificities of human transcription factors
  publication-title: Science
  doi: 10.1126/science.aaj2239
– volume: 102647
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0570
  article-title: Scales and mechanisms of somatic mutation rate variation across the human genome
  publication-title: DNA Repair (Amst)
– volume: 49
  start-page: 1603
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0015
  article-title: Oxidative stress, inflammation, and cancer: how are they linked
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2010.09.006
– volume: 379
  start-page: 17
  year: 2008
  ident: 10.1016/j.csbj.2019.12.013_b0675
  article-title: Characterization of abasic endonuclease activity of human Ape1 on alternative substrates, as well as effects of ATP and sequence context on AP site incision
  publication-title: J Mol Biol
  doi: 10.1016/j.jmb.2008.03.053
– volume: 170
  start-page: 534
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0840
  article-title: Clustered mutation signatures reveal that error-prone DNA repair targets mutations to active genes
  publication-title: Cell
  doi: 10.1016/j.cell.2017.07.003
– volume: 17
  start-page: 2419
  year: 1996
  ident: 10.1016/j.csbj.2019.12.013_b0250
  article-title: Increased 8-hydroxyguanine levels in DNA and its repair activity in rat kidney after administration of a renal carcinogen, ferric nitrilotriacetate
  publication-title: Carcinogenesis
  doi: 10.1093/carcin/17.11.2419
– volume: 19
  start-page: 82
  year: 2005
  ident: 10.1016/j.csbj.2019.12.013_b0255
  article-title: Establishing the background level of base oxidation in human lymphocyte DNA
  publication-title: FASEB J
  doi: 10.1096/fj.04-1767fje
– volume: 23
  start-page: 1911
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0415
  article-title: Cellular background level of 8-oxo-7,8-dihydro-2′-deoxyguanosine: an isotope based method to evaluate artefactual oxidation of DNA during its extraction and subsequent work-up
  publication-title: Carcinogenesis
  doi: 10.1093/carcin/23.11.1911
– volume: 169
  start-page: 780
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0430
  article-title: Lamina-associated domains: links with chromosome architecture, heterochromatin, and gene repression
  publication-title: Cell
  doi: 10.1016/j.cell.2017.04.022
– volume: 10
  start-page: 34
  year: 2011
  ident: 10.1016/j.csbj.2019.12.013_b0510
  article-title: Factors that influence telomeric oxidative base damage and repair by DNA glycosylase OGG1
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2010.09.008
– volume: 286
  start-page: 44679
  year: 2011
  ident: 10.1016/j.csbj.2019.12.013_b0630
  article-title: Poly(ADP-ribose) polymerase 1 (PARP-1) binds to 8-oxoguanine-DNA glycosylase (OGG1)
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M111.255869
– volume: 238
  start-page: 98
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0845
  article-title: Adenoma development in familial adenomatous polyposis and MUTYH-associated polyposis: somatic landscape and driver genes
  publication-title: J Pathol
  doi: 10.1002/path.4643
– year: 2000
  ident: 10.1016/j.csbj.2019.12.013_b0045
  article-title: The origins, patterns and implications of human spontaneous mutation
  publication-title: Nat Rev Genet
  doi: 10.1038/35049558
– volume: 289
  start-page: 13996
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0610
  article-title: Base excision repair of tandem modifications in a methylated CpG dinucleotide
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M114.557769
– volume: 38
  start-page: 2878
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0450
  article-title: Oxidative stress triggers the preferential assembly of base excision repair complexes on open chromatin regions
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkp1247
– volume: 21
  start-page: 329
  year: 1972
  ident: 10.1016/j.csbj.2019.12.013_b0025
  article-title: Protection of DNA molecules of cultured mammalian cells from radiation-induced single-strand scissions by various alcohols and SH compounds
  publication-title: Int J Radiat Biol Relat Stud Phys Chem Med
  doi: 10.1080/09553007214550401
– volume: 27
  start-page: 339
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0140
  article-title: Oxidative stress shortens telomeres
  publication-title: Trends Biochem Sci
  doi: 10.1016/S0968-0004(02)02110-2
– volume: 58
  start-page: 371
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0550
  article-title: High-resolution chromatin dynamics during a yeast stress response
  publication-title: Mol Cell
  doi: 10.1016/j.molcel.2015.02.002
– volume: 139
  start-page: 2569
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0075
  article-title: Sequencing the mouse genome for the oxidatively modified base 8-oxo-7,8-dihydroguanine by OG-seq
  publication-title: J Am Chem Soc
  doi: 10.1021/jacs.6b12604
– volume: 45
  start-page: 1113
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0165
  article-title: The Cancer Genome Atlas Pan-Cancer analysis project
  publication-title: Nat Genet
  doi: 10.1038/ng.2764
– volume: 14
  start-page: 607
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0325
  article-title: Telomeres and telomerase in prostate cancer development and therapy
  publication-title: Nat Rev Urol
  doi: 10.1038/nrurol.2017.104
– volume: 136
  start-page: 4223
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0605
  article-title: Mapping structurally defined guanine oxidation products along DNA duplexes: influence of local sequence context and endogenous cytosine methylation
  publication-title: J Am Chem Soc
  doi: 10.1021/ja411636j
– volume: 49
  start-page: 1684
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0560
  article-title: Reduced mutation rate in exons due to differential mismatch repair
  publication-title: Nat Genet
  doi: 10.1038/ng.3991
– volume: 288
  start-page: 27263
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0515
  article-title: Neil3 and NEIL1 DNA glycosylases remove oxidative damages from quadruplex DNA and exhibit preferences for lesions in the telomeric sequence context
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M113.479055
– volume: 553
  start-page: 228
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0540
  article-title: Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators
  publication-title: Nature
  doi: 10.1038/nature25179
– year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0320
  article-title: G-Quadruplexes: prediction, characterization, and biological application
  publication-title: Trends Biotechnol
  doi: 10.1016/j.tibtech.2017.06.012
– volume: 107
  start-page: 22475
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0340
  article-title: Rapid DNA–protein cross-linking and strand scission by an abasic site in a nucleosome core particle
  publication-title: Proc Natl Acad Sci
  doi: 10.1073/pnas.1012860108
– volume: 14
  start-page: 7400
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0885
  article-title: Proton-coupled hole hopping in nucleosomal and free DNA initiated by site-specific hole injection
  publication-title: Phys Chem Chem Phys
  doi: 10.1039/c2cp40759k
– volume: 3
  start-page: 1457
  year: 2004
  ident: 10.1016/j.csbj.2019.12.013_b0290
  article-title: Transcription activities at 8-oxoG lesions in DNA
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2004.06.008
– volume: 3
  start-page: 1
  year: 2004
  ident: 10.1016/j.csbj.2019.12.013_b0335
  article-title: Abasic sites in DNA: repair and biological consequences in Saccharomyces cerevisiae
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2003.10.002
– volume: 2
  start-page: 348
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0190
  article-title: One-electron oxidation of DNA and inflammation processes
  publication-title: Nat Chem Biol
  doi: 10.1038/nchembio0706-348
– volume: 8
  start-page: 953
  year: 2009
  ident: 10.1016/j.csbj.2019.12.013_b0455
  article-title: Localization of X-ray cross complementing gene 1 protein in the nuclear matrix is controlled by casein kinase II-dependent phosphorylation in response to oxidative damage
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2009.06.003
– volume: 32
  start-page: 71
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0875
  article-title: Reduced local mutation density in regulatory DNA of cancer genomes is linked to DNA repair
  publication-title: Nat Biotechnol
  doi: 10.1038/nbt.2778
– volume: 561
  start-page: 473
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0175
  article-title: Population dynamics of normal human blood inferred from somatic mutations
  publication-title: Nature
  doi: 10.1038/s41586-018-0497-0
– volume: 26
  start-page: 1654
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0495
  article-title: Acetylation of human 8-oxoguanine-DNA glycosylase by p300 and its role in 8-oxoguanine repair in vivo
  publication-title: Mol Cell Biol
  doi: 10.1128/MCB.26.5.1654-1665.2006
– volume: 5
  start-page: 9
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0270
  article-title: Oxidative stress and antioxidant defense
  publication-title: World Allergy Organ J
  doi: 10.1097/WOX.0b013e3182439613
– volume: 2
  start-page: 365
  year: 2006
  ident: 10.1016/j.csbj.2019.12.013_b0195
  article-title: Paradoxical hotspots for guanine oxidation by a chemical mediator of inflammation
  publication-title: Nat Chem Biol
  doi: 10.1038/nchembio796
– volume: 59
  start-page: 82
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0005
  article-title: Not breathing is not an option: How to deal with oxidative DNA damage
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2017.09.007
– volume: 319
  start-page: 202
  year: 2008
  ident: 10.1016/j.csbj.2019.12.013_b0700
  article-title: DNA oxidation as triggered by H3K9me2 demethylation drives estrogen-induced gene expression
  publication-title: Science
  doi: 10.1126/science.1147674
– volume: 69
  start-page: 840
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0800
  article-title: Mutational landscape of a chemically-induced mouse model of liver cancer
  publication-title: J Hepatol
  doi: 10.1016/j.jhep.2018.06.009
– volume: 26
  start-page: 15
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0350
  article-title: Inactivation of a common OGG1 variant by TNF-alpha in mammalian cells
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2014.11.007
– year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0820
  article-title: Mutational signatures are jointly shaped by DNA damage and repair
  publication-title: bioRxiv
– volume: 51
  start-page: 1732
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0850
  article-title: The mutational footprints of cancer therapies
  publication-title: Nat Genet
  doi: 10.1038/s41588-019-0525-5
– volume: 47
  start-page: 5049
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0545
  article-title: Location dependence of the transcriptional response of a potential G-quadruplex in gene promoters under oxidative stress
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkz207
– volume: 94
  start-page: 3633
  year: 1997
  ident: 10.1016/j.csbj.2019.12.013_b0670
  article-title: AP-1 transcriptional activity is regulated by a direct association between thioredoxin and Ref-1
  publication-title: Proc Natl Acad Sci USA
  doi: 10.1073/pnas.94.8.3633
– volume: 125
  start-page: 13658
  year: 2003
  ident: 10.1016/j.csbj.2019.12.013_b0505
  article-title: Mapping the sites for selective oxidation of guanines in DNA
  publication-title: J Am Chem Soc
  doi: 10.1021/ja037027d
– volume: 355
  start-page: 273
  year: 1992
  ident: 10.1016/j.csbj.2019.12.013_b0215
  article-title: MutT protein specifically hydrolyses a potent mutagenic substrate for DNA synthesis
  publication-title: Nature
  doi: 10.1038/355273a0
– volume: 11
  start-page: 3610
  year: 1972
  ident: 10.1016/j.csbj.2019.12.013_b0245
  article-title: Rate of depurination of native deoxyribonucleic acid
  publication-title: Biochemistry
  doi: 10.1021/bi00769a018
– volume: 10
  start-page: 4571
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0855
  article-title: 5-Fluorouracil treatment induces characteristic T>G mutations in human cancer
  publication-title: Nat Commun
  doi: 10.1038/s41467-019-12594-8
– volume: 31
  start-page: 217
  year: 1999
  ident: 10.1016/j.csbj.2019.12.013_b0275
  article-title: Effects of 8-oxo-7,8-dihydro-2′-deoxyguanosine on the binding of the transcription factor Sp1 to its cognate target DNA sequence (GC box)
  publication-title: Free Radic Res
  doi: 10.1080/10715769900300781
– volume: 175
  start-page: 1074
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0105
  article-title: Somatic and germline mutation periodicity follow the orientation of the DNA minor groove around nucleosomes
  publication-title: Cell
  doi: 10.1016/j.cell.2018.10.004
– volume: 273
  start-page: 11069
  issue: 18
  year: 1998
  ident: 10.1016/j.csbj.2019.12.013_b0220
  article-title: Induction of chromosomal gene mutations in Escherichia coli by direct incorporation of oxidatively damaged nucleotides. New evaluation method for mutagenesis by damaged DNA precursors in vivo
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.273.18.11069
– volume: 83
  start-page: 181
  year: 1989
  ident: 10.1016/j.csbj.2019.12.013_b0710
  article-title: Cytosine methylation and the fate of CpG dinucleotides in vertebrate genomes
  publication-title: Hum Genet
  doi: 10.1007/BF00286715
– volume: 107
  start-page: 159
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0485
  article-title: Chromatin associated mechanisms in base excision repair – nucleosome remodeling and DNA transcription, two key players
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2016.12.026
– volume: 39
  start-page: 2
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0740
  article-title: Mutations induced by 8-hydroxyguanine (8-oxo-7,8-dihydroguanine), a representative oxidized base, in mammalian cells
  publication-title: Genes Environ
  doi: 10.1186/s41021-016-0051-y
– volume: 43
  start-page: 649
  year: 2011
  ident: 10.1016/j.csbj.2019.12.013_b0830
  article-title: The hMsh2-hMsh6 complex acts in concert with monoubiquitinated PCNA and Pol η in response to oxidative DNA damage in human cells
  publication-title: Mol Cell
  doi: 10.1016/j.molcel.2011.06.023
– volume: 46
  start-page: 352
  year: 2009
  ident: 10.1016/j.csbj.2019.12.013_b0295
  article-title: Hypoxia-induced oxidative base modifications in the VEGF hypoxia-response element are associated with transcriptionally active nucleosomes
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2008.09.038
– volume: 149
  start-page: 979
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0790
  article-title: Mutational processes molding the genomes of 21 breast cancers
  publication-title: Cell
  doi: 10.1016/j.cell.2012.04.024
– volume: 107
  start-page: 13
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0200
  article-title: Formation and repair of oxidatively generated damage in cellular DNA
  publication-title: Free Radic Biol Med
  doi: 10.1016/j.freeradbiomed.2016.12.049
– volume: 47
  start-page: 221
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0090
  article-title: Genome-wide mapping of 8-oxo-7,8-dihydro-2′-deoxyguanosine reveals accumulation of oxidatively-generated damage at DNA replication origins within transcribed long genes of mammalian cells
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gky1152
– volume: 29
  start-page: 1834
  year: 2009
  ident: 10.1016/j.csbj.2019.12.013_b0660
  article-title: APE1/Ref-1 interacts with NPM1 within nucleoli and plays a role in the rRNA quality control process
  publication-title: Mol Cell Biol
  doi: 10.1128/MCB.01337-08
– volume: 120
  start-page: 23
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0445
  article-title: UVA irradiation induces relocalisation of the DNA repair protein hOGG1 to nuclear speckles
  publication-title: J Cell Sci
  doi: 10.1242/jcs.03312
– volume: 27
  start-page: 5949
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0480
  article-title: ATP-dependent chromatin remodeling is required for base excision repair in conventional but not in variant H2A.Bbd nucleosomes
  publication-title: Mol Cell Biol
  doi: 10.1128/MCB.00376-07
– volume: 38
  start-page: 832
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0655
  article-title: SIRT1 deacetylates APE1 and regulates cellular base excision repair
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkp1039
– volume: 9
  start-page: 1744
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0810
  article-title: Validating the concept of mutational signatures with isogenic cell models
  publication-title: Nat Commun
  doi: 10.1038/s41467-018-04052-8
– volume: 5
  start-page: 5224
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0760
  article-title: Genomic catastrophes frequently arise in esophageal adenocarcinoma and drive tumorigenesis
  publication-title: Nat Commun
  doi: 10.1038/ncomms6224
– ident: 10.1016/j.csbj.2019.12.013_b0360
  doi: 10.1007/978-1-0716-0763-3_8
– volume: 19
  start-page: 215
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0085
  article-title: Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis
  publication-title: Genome Biol
  doi: 10.1186/s13059-018-1582-2
– volume: 56
  start-page: 75
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0125
  article-title: 8-Oxo-7,8-dihydroguanine, friend and foe: Epigenetic-like regulator versus initiator of mutagenesis
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2017.06.009
– volume: 9
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0130
  article-title: Oxidative stress induces persistent telomeric DNA damage responsible for nuclear morphology change in mammalian cells
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0110963
– volume: 41
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0420
  article-title: Discovery and characterization of artifactual mutations in deep coverage targeted capture sequencing data due to oxidative DNA damage during sample preparation
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gks1443
– volume: 46
  start-page: 661
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0520
  article-title: The regulatory G4 motif of the Kirsten ras (KRAS) gene is sensitive to guanine oxidation: implications on transcription
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkx1142
– volume: 4
  start-page: 18
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0720
  article-title: MUTYH DNA glycosylase: the rationale for removing undamaged bases from the DNA
  publication-title: Front Genet
  doi: 10.3389/fgene.2013.00018
– volume: 100
  start-page: 7465
  year: 2003
  ident: 10.1016/j.csbj.2019.12.013_b0475
  article-title: Suppressed catalytic activity of base excision repair enzymes on rotationally positioned uracil in nucleosomes
  publication-title: Proc Natl Acad Sci USA
  doi: 10.1073/pnas.1330328100
– volume: 168
  start-page: 644
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0050
  article-title: Endogenous DNA damage as a source of genomic instability in cancer
  publication-title: Cell
  doi: 10.1016/j.cell.2017.01.002
– volume: 287
  start-page: 560
  year: 1980
  ident: 10.1016/j.csbj.2019.12.013_b0705
  article-title: Mutagenic deamination of cytosine residues in DNA
  publication-title: Nature
  doi: 10.1038/287560a0
– volume: 11
  start-page: 629
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0155
  article-title: Sequencing abasic sites in DNA at single-nucleotide resolution
  publication-title: Nat Chem
  doi: 10.1038/s41557-019-0279-9
– volume: 42
  start-page: 8379
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0685
  article-title: HRAS is silenced by two neighboring G-quadruplexes and activated by MAZ, a zinc-finger transcription factor with DNA unfolding property
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gku574
– volume: 42
  start-page: 9761
  year: 2003
  ident: 10.1016/j.csbj.2019.12.013_b0280
  article-title: Oxidized guanine lesions as modulators of gene transcription. Altered p50 binding affinity and repair shielding by 7,8-dihydro-8-oxo-2′-deoxyguanosine lesions in the NF-kappaB promoter element
  publication-title: Biochemistry
  doi: 10.1021/bi034546k
– volume: 98
  start-page: 1221
  year: 1998
  ident: 10.1016/j.csbj.2019.12.013_b0405
  article-title: Chemistry of glycosylases and endonucleases involved in base-excision repair
  publication-title: Chem Rev
  doi: 10.1021/cr980321h
– volume: 75
  start-page: 3741
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0310
  article-title: The roles of base excision repair enzyme OGG1 in gene expression
  publication-title: Cell Mol Life Sci
  doi: 10.1007/s00018-018-2887-8
– volume: 207
  start-page: 379
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0625
  article-title: Proteins of nucleotide and base excision repair pathways interact in mitochondria to protect from loss of subcutaneous fat, a hallmark of aging
  publication-title: J Exp Med
  doi: 10.1084/jem.20091834
– volume: 24
  start-page: 1751
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0860
  article-title: Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition
  publication-title: Genome Res
  doi: 10.1101/gr.178335.114
– volume: 448
  start-page: 767
  year: 2007
  ident: 10.1016/j.csbj.2019.12.013_b0060
  article-title: The common biology of cancer and ageing
  publication-title: Nature
  doi: 10.1038/nature05985
– volume: 45
  start-page: 478
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0755
  article-title: Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity
  publication-title: Nat Genet
  doi: 10.1038/ng.2591
– volume: 8
  start-page: 15760
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0580
  article-title: Identification of the elementary structural units of the DNA damage response
  publication-title: Nat Commun
  doi: 10.1038/ncomms15760
– volume: 47
  start-page: 1038
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0750
  article-title: Whole-genome sequencing provides new insights into the clonal architecture of Barrett’s esophagus and esophageal adenocarcinoma
  publication-title: Nat Genet
  doi: 10.1038/ng.3357
– volume: 12
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0640
  article-title: RAS transformation requires CUX1-dependent repair of oxidative DNA damage
  publication-title: PLoS Biol
  doi: 10.1371/journal.pbio.1001807
– volume: 67
  start-page: 162
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0825
  article-title: Noncanonical mismatch repair as a source of genomic instability in human cells
  publication-title: Mol Cell
  doi: 10.1016/j.molcel.2017.06.026
– volume: 27
  start-page: 1674
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0575
  article-title: Genome-wide maps of alkylation damage, repair, and mutagenesis in yeast reveal mechanisms of mutational heterogeneity
  publication-title: Genome Res
  doi: 10.1101/gr.225771.117
– volume: 176
  start-page: 1282
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0835
  article-title: Characterizing mutational signatures in human cancer cell lines reveals episodic APOBEC mutagenesis
  publication-title: Cell
  doi: 10.1016/j.cell.2019.02.012
– volume: 8
  start-page: 637
  year: 2009
  ident: 10.1016/j.csbj.2019.12.013_b0230
  article-title: Involvement of specialized DNA polymerases in mutagenesis by 8-hydroxy-dGTP in human cells
  publication-title: DNA Repair (Amst)
  doi: 10.1016/j.dnarep.2008.12.009
– volume: 13
  start-page: 204
  year: 2012
  ident: 10.1016/j.csbj.2019.12.013_b0585
  article-title: Transcription as a source of genome instability
  publication-title: Nat Rev Genet
  doi: 10.1038/nrg3152
– volume: 28
  start-page: 1264
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0530
  article-title: Noncanonical secondary structures arising from non-B DNA motifs are determinants of mutagenesis
  publication-title: Genome Res
  doi: 10.1101/gr.231688.117
– volume: 75
  start-page: 117
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0135
  article-title: Targeted and persistent 8-oxoguanine base damage at telomeres promotes telomere loss and crisis
  publication-title: Mol Cell
  doi: 10.1016/j.molcel.2019.04.024
– volume: 362
  start-page: 709
  year: 1993
  ident: 10.1016/j.csbj.2019.12.013_b0210
  article-title: Instability and decay of the primary structure of DNA
  publication-title: Nature
  doi: 10.1038/362709a0
– volume: 362
  start-page: 911
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0185
  article-title: Somatic mutant clones colonize the human esophagus with age
  publication-title: Science
  doi: 10.1126/science.aau3879
– volume: 5
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0470
  article-title: Inactivation of the ATMIN/ATM pathway protects against glioblastoma formation
  publication-title: Elife
  doi: 10.7554/eLife.08711
– volume: 538
  start-page: 260
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0170
  article-title: Tissue-specific mutation accumulation in human adult stem cells during life
  publication-title: Nature
  doi: 10.1038/nature19768
– volume: 41
  start-page: 9339
  year: 2013
  ident: 10.1016/j.csbj.2019.12.013_b0330
  article-title: Replication fork collapse is a major cause of the high mutation frequency at three-base lesion clusters
  publication-title: Nucleic Acids Res
  doi: 10.1093/nar/gkt731
– volume: 10
  start-page: 1789
  year: 1996
  ident: 10.1016/j.csbj.2019.12.013_b0395
  article-title: Determination of 8-hydroxydeoxyguanosine in biological tissue by liquid chromatography/electrospray ionization-mass spectrometry/mass spectrometry
  publication-title: Rapid Commun Mass Spectrom
  doi: 10.1002/(SICI)1097-0231(199611)10:14<1789::AID-RCM752>3.0.CO;2-6
– volume: 47
  start-page: 1043
  year: 2008
  ident: 10.1016/j.csbj.2019.12.013_b0400
  article-title: Efficient removal of formamidopyrimidines by 8-oxoguanine glycosylases
  publication-title: Biochemistry
  doi: 10.1021/bi701619u
– volume: 22
  start-page: 4518
  year: 1983
  ident: 10.1016/j.csbj.2019.12.013_b0730
  article-title: Insertion of nucleotides opposite apurinic/apyrimidinic sites in deoxyribonucleic acid during in vitro synthesis: uniqueness of adenine nucleotides
  publication-title: Biochemistry
  doi: 10.1021/bi00288a026
– volume: 464
  start-page: 993
  year: 2010
  ident: 10.1016/j.csbj.2019.12.013_b0160
  article-title: International network of cancer genome projects
  publication-title: Nature
  doi: 10.1038/nature08987
– volume: 15
  start-page: 585
  year: 2014
  ident: 10.1016/j.csbj.2019.12.013_b0815
  article-title: Mechanisms underlying mutational signatures in human cancers
  publication-title: Nat Rev Genet
  doi: 10.1038/nrg3729
– volume: 239–240
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0380
  article-title: Detection of NO-induced DNA lesions by the modified aldehyde reactive probe (ARP) assay
  publication-title: Nucleic Acids Res Suppl
– volume: 349
  start-page: 431
  year: 1991
  ident: 10.1016/j.csbj.2019.12.013_b0715
  article-title: Insertion of specific bases during DNA synthesis past the oxidation-damaged base 8-oxodG
  publication-title: Nature
  doi: 10.1038/349431a0
– volume: 177
  start-page: 101
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0765
  article-title: Local determinants of the mutational landscape of the human genome
  publication-title: Cell
  doi: 10.1016/j.cell.2019.02.051
– volume: 20
  start-page: 50
  year: 2019
  ident: 10.1016/j.csbj.2019.12.013_b0780
  article-title: Analysis of error profiles in deep next-generation sequencing data
  publication-title: Genome Biol
  doi: 10.1186/s13059-019-1659-6
– volume: 124
  start-page: 3586
  year: 2002
  ident: 10.1016/j.csbj.2019.12.013_b0600
  article-title: Regulation of one-electron oxidation rate of guanine by base pairing with cytosine derivatives
  publication-title: J Am Chem Soc
  doi: 10.1021/ja016530s
– volume: 34
  start-page: 627
  year: 2018
  ident: 10.1016/j.csbj.2019.12.013_b0695
  article-title: DNA modifications: naturally more error prone
  publication-title: Trends Genet
  doi: 10.1016/j.tig.2018.04.005
– volume: 44
  start-page: 7267
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0145
  article-title: Widespread transcriptional gene inactivation initiated by a repair intermediate of 8-oxoguanine
  publication-title: Nucleic Acids Res
– volume: 518
  start-page: 502
  year: 2015
  ident: 10.1016/j.csbj.2019.12.013_b0865
  article-title: Lagging-strand replication shapes the mutational landscape of the genome
  publication-title: Nature
  doi: 10.1038/nature14183
– volume: 11
  year: 2016
  ident: 10.1016/j.csbj.2019.12.013_b0120
  article-title: Gene-specific assessment of guanine oxidation as an epigenetic modulator for cardiac specification of mouse embryonic stem cells
  publication-title: PLoS One
– volume: 283
  start-page: 35569
  year: 2008
  ident: 10.1016/j.csbj.2019.12.013_b0500
  article-title: DNA sequence context as a determinant of the quantity and chemistry of guanine oxidation produced by hydroxyl radicals and one-electron oxidants
  publication-title: J Biol Chem
  doi: 10.1074/jbc.M806809200
– volume: 547
  start-page: 236
  year: 2017
  ident: 10.1016/j.csbj.2019.12.013_b0435
  article-title: Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin
  publication-title: Nature
  doi: 10.1038/nature22822
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Snippet [Display omitted] Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome...
Reactive oxygen species are a constant threat to DNA as they modify bases with the risk of disrupting genome function, inducing genome instability and...
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SubjectTerms 8-oxo-7,8-dihydroguanine
8-oxoG
AP site
BER
Cancer
DNA
DNA damage
Epigenetics
genes
genetic instability
Genomics
inflammation
Mutagenesis
mutagens
neoplasms
nucleotide sequences
Oxidative stress
reactive oxygen species
Review
risk
ROS
Title The genomics of oxidative DNA damage, repair, and resulting mutagenesis
URI https://dx.doi.org/10.1016/j.csbj.2019.12.013
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