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5-Formylcytosine-induced DNA-peptide cross-links reduce transcription efficiency, but do not cause transcription errors in human cells.

Ji S, Park D, Kropachev K, Kolbanovskiy M, Fu I, Broyde S, Essawy M, Geacintov NE, Tretyakova NY.

J Biol Chem. 2019 Nov 29;294(48):18387-18397. doi: 10.1074/jbc.RA119.009834. Epub 2019 Oct 9.


5',8-Cyclopurine Lesions in DNA Damage: Chemical, Analytical, Biological, and Diagnostic Significance.

Chatgilialoglu C, Ferreri C, Geacintov NE, Krokidis MG, Liu Y, Masi A, Shafirovich V, Terzidis MA, Tsegay PS.

Cells. 2019 May 28;8(6). pii: E513. doi: 10.3390/cells8060513. Review.


Excision of Oxidatively Generated Guanine Lesions by Competing Base and Nucleotide Excision Repair Mechanisms in Human Cells.

Shafirovich V, Kropachev K, Kolbanovskiy M, Geacintov NE.

Chem Res Toxicol. 2019 Apr 15;32(4):753-761. doi: 10.1021/acs.chemrestox.8b00411. Epub 2019 Feb 8.


Nucleotide Excision Repair and Impact of Site-Specific 5',8-Cyclopurine and Bulky DNA Lesions on the Physical Properties of Nucleosomes.

Shafirovich V, Kolbanovskiy M, Kropachev K, Liu Z, Cai Y, Terzidis MA, Masi A, Chatgilialoglu C, Amin S, Dadali A, Broyde S, Geacintov NE.

Biochemistry. 2019 Feb 12;58(6):561-574. doi: 10.1021/acs.biochem.8b01066. Epub 2019 Jan 7.


Aberrant repair initiated by the adenine-DNA glycosylase does not play a role in UV-induced mutagenesis in Escherichia coli.

Zutterling C, Mursalimov A, Talhaoui I, Koshenov Z, Akishev Z, Bissenbaev AK, Mazon G, Geacintov NE, Gasparutto D, Groisman R, Zharkov DO, Matkarimov BT, Saparbaev M.

PeerJ. 2018 Dec 5;6:e6029. doi: 10.7717/peerj.6029. eCollection 2018.


Lesion Sensing during Initial Binding by Yeast XPC/Rad4: Toward Predicting Resistance to Nucleotide Excision Repair.

Mu H, Zhang Y, Geacintov NE, Broyde S.

Chem Res Toxicol. 2018 Nov 19;31(11):1260-1268. doi: 10.1021/acs.chemrestox.8b00231. Epub 2018 Oct 22.


Molecular basis for damage recognition and verification by XPC-RAD23B and TFIIH in nucleotide excision repair.

Mu H, Geacintov NE, Broyde S, Yeo JE, Schärer OD.

DNA Repair (Amst). 2018 Nov;71:33-42. doi: 10.1016/j.dnarep.2018.08.005. Epub 2018 Aug 23. Review.


Generation of 8-oxo-7,8-dihydroguanine in G-Quadruplexes Models of Human Telomere Sequences by One-electron Oxidation.

Merta TJ, Geacintov NE, Shafirovich V.

Photochem Photobiol. 2019 Jan;95(1):244-251. doi: 10.1111/php.12926. Epub 2018 Jun 4.


Synergistic effects of H3 and H4 nucleosome tails on structure and dynamics of a lesion-containing DNA: Binding of a displaced lesion partner base to the H3 tail for GG-NER recognition.

Cai Y, Fu I, Geacintov NE, Zhang Y, Broyde S.

DNA Repair (Amst). 2018 May;65:73-78. doi: 10.1016/j.dnarep.2018.02.009. Epub 2018 Mar 8.


Mutational signatures reveal the role of RAD52 in p53-independent p21-driven genomic instability.

Galanos P, Pappas G, Polyzos A, Kotsinas A, Svolaki I, Giakoumakis NN, Glytsou C, Pateras IS, Swain U, Souliotis VL, Georgakilas AG, Geacintov N, Scorrano L, Lukas C, Lukas J, Livneh Z, Lygerou Z, Chowdhury D, Sørensen CS, Bartek J, Gorgoulis VG.

Genome Biol. 2018 Mar 16;19(1):37. doi: 10.1186/s13059-018-1401-9.


Mechanism of error-free replication across benzo[a]pyrene stereoisomers by Rev1 DNA polymerase.

Rechkoblit O, Kolbanovskiy A, Landes H, Geacintov NE, Aggarwal AK.

Nat Commun. 2017 Oct 17;8(1):965. doi: 10.1038/s41467-017-01013-5.


Repair-Resistant DNA Lesions.

Geacintov NE, Broyde S.

Chem Res Toxicol. 2017 Aug 21;30(8):1517-1548. doi: 10.1021/acs.chemrestox.7b00128. Epub 2017 Aug 10. Review.


The Nonbulky DNA Lesions Spiroiminodihydantoin and 5-Guanidinohydantoin Significantly Block Human RNA Polymerase II Elongation in Vitro.

Kolbanovskiy M, Chowdhury MA, Nadkarni A, Broyde S, Geacintov NE, Scicchitano DA, Shafirovich V.

Biochemistry. 2017 Jun 20;56(24):3008-3018. doi: 10.1021/acs.biochem.7b00295. Epub 2017 Jun 7.


Nucleotide Excision Repair Lesion-Recognition Protein Rad4 Captures a Pre-Flipped Partner Base in a Benzo[a]pyrene-Derived DNA Lesion: How Structure Impacts the Binding Pathway.

Mu H, Geacintov NE, Min JH, Zhang Y, Broyde S.

Chem Res Toxicol. 2017 Jun 19;30(6):1344-1354. doi: 10.1021/acs.chemrestox.7b00074. Epub 2017 May 15.


Nucleosome Histone Tail Conformation and Dynamics: Impacts of Lysine Acetylation and a Nearby Minor Groove Benzo[a]pyrene-Derived Lesion.

Fu I, Cai Y, Geacintov NE, Zhang Y, Broyde S.

Biochemistry. 2017 Apr 11;56(14):1963-1973. doi: 10.1021/acs.biochem.6b01208. Epub 2017 Mar 22.


Removal of oxidatively generated DNA damage by overlapping repair pathways.

Shafirovich V, Geacintov NE.

Free Radic Biol Med. 2017 Jun;107:53-61. doi: 10.1016/j.freeradbiomed.2016.10.507. Epub 2016 Nov 4. Review.


Translesion synthesis past guanine(C8)-thymine(N3) intrastrand cross-links catalyzed by selected A- and Y-family polymerases.

Lee YA, Lee YC, Geacintov NE, Shafirovich V.

Mol Biosyst. 2016 May 24;12(6):1892-900. doi: 10.1039/c6mb00160b.


Characterization of the interactions of PARP-1 with UV-damaged DNA in vivo and in vitro.

Purohit NK, Robu M, Shah RG, Geacintov NE, Shah GM.

Sci Rep. 2016 Jan 12;6:19020. doi: 10.1038/srep19020.


Base and Nucleotide Excision Repair of Oxidatively Generated Guanine Lesions in DNA.

Shafirovich V, Kropachev K, Anderson T, Liu Z, Kolbanovskiy M, Martin BD, Sugden K, Shim Y, Chen X, Min JH, Geacintov NE.

J Biol Chem. 2016 Mar 4;291(10):5309-19. doi: 10.1074/jbc.M115.693218. Epub 2016 Jan 5.


Entrapment of a Histone Tail by a DNA Lesion in a Nucleosome Suggests the Lesion Impacts Epigenetic Marking: A Molecular Dynamics Study.

Fu I, Cai Y, Zhang Y, Geacintov NE, Broyde S.

Biochemistry. 2016 Jan 19;55(2):239-42. doi: 10.1021/acs.biochem.5b01166. Epub 2016 Jan 6.


Nucleotide Excision Repair and Transcription-coupled DNA Repair Abrogate the Impact of DNA Damage on Transcription.

Nadkarni A, Burns JA, Gandolfi A, Chowdhury MA, Cartularo L, Berens C, Geacintov NE, Scicchitano DA.

J Biol Chem. 2016 Jan 8;291(2):848-61. doi: 10.1074/jbc.M115.685271. Epub 2015 Nov 11.


Correction: Resistance to Nucleotide Excision Repair of Bulky Guanine Adducts Opposite Abasic Sites in DNA Duplexes and Relationships between Structure and Function.

Liu Z, Ding S, Kropachev K, Jia L, Amin S, Broyde S, Geacintov NE.

PLoS One. 2015 Oct 29;10(10):e0142068. doi: 10.1371/journal.pone.0142068. eCollection 2015. No abstract available.


Resistance to Nucleotide Excision Repair of Bulky Guanine Adducts Opposite Abasic Sites in DNA Duplexes and Relationships between Structure and Function.

Liu Z, Ding S, Kropachev K, Jia L, Amin S, Broyde S, Geacintov NE.

PLoS One. 2015 Sep 4;10(9):e0137124. doi: 10.1371/journal.pone.0137124. eCollection 2015. Erratum in: PLoS One. 2015;10(10):e0142068. Lei, Jia [corrected to Jia, Lei].


DNA sequence context greatly affects the accuracy of bypass across an ultraviolet light 6-4 photoproduct in mammalian cells.

Shriber P, Leitner-Dagan Y, Geacintov N, Paz-Elizur T, Livneh Z.

Mutat Res. 2015 Oct;780:71-6. doi: 10.1016/j.mrfmmm.2015.08.002. Epub 2015 Aug 13.


Recognition of Damaged DNA for Nucleotide Excision Repair: A Correlated Motion Mechanism with a Mismatched cis-syn Thymine Dimer Lesion.

Mu H, Geacintov NE, Zhang Y, Broyde S.

Biochemistry. 2015 Sep 1;54(34):5263-7. doi: 10.1021/acs.biochem.5b00840. Epub 2015 Aug 18.


Differences in the Access of Lesions to the Nucleotide Excision Repair Machinery in Nucleosomes.

Cai Y, Kropachev K, Terzidis MA, Masi A, Chatgilialoglu C, Shafirovich V, Geacintov NE, Broyde S.

Biochemistry. 2015 Jul 14;54(27):4181-5. doi: 10.1021/acs.biochem.5b00564. Epub 2015 Jun 30.


Oxidatively Generated Guanine(C8)-Thymine(N3) Intrastrand Cross-links in Double-stranded DNA Are Repaired by Base Excision Repair Pathways.

Talhaoui I, Shafirovich V, Liu Z, Saint-Pierre C, Akishev Z, Matkarimov BT, Gasparutto D, Geacintov NE, Saparbaev M.

J Biol Chem. 2015 Jun 5;290(23):14610-7. doi: 10.1074/jbc.M115.647487. Epub 2015 Apr 22.


DNA lesion identity drives choice of damage tolerance pathway in murine cell chromosomes.

Cohen IS, Bar C, Paz-Elizur T, Ainbinder E, Leopold K, de Wind N, Geacintov N, Livneh Z.

Nucleic Acids Res. 2015 Feb 18;43(3):1637-45.


Human DNA polymerases catalyze lesion bypass across benzo[a]pyrene-derived DNA adduct clustered with an abasic site.

Starostenko LV, Rechkunova NI, Lebedeva NA, Kolbanovskiy A, Geacintov NE, Lavrik OI.

DNA Repair (Amst). 2014 Dec;24:1-9. doi: 10.1016/j.dnarep.2014.10.005.


Identification of novel DNA-damage tolerance genes reveals regulation of translesion DNA synthesis by nucleophosmin.

Ziv O, Zeisel A, Mirlas-Neisberg N, Swain U, Nevo R, Ben-Chetrit N, Martelli MP, Rossi R, Schiesser S, Canman CE, Carell T, Geacintov NE, Falini B, Domany E, Livneh Z.

Nat Commun. 2014 Nov 25;5:5437. doi: 10.1038/ncomms6437.


Structural and dynamic characterization of polymerase κ's minor groove lesion processing reveals how adduct topology impacts fidelity.

Lior-Hoffmann L, Ding S, Geacintov NE, Zhang Y, Broyde S.

Biochemistry. 2014 Sep 9;53(35):5683-91. doi: 10.1021/bi5007964. Epub 2014 Aug 22.


Generation of guanine-amino acid cross-links by a free radical combination mechanism.

Uvaydov Y, Geacintov NE, Shafirovich V.

Phys Chem Chem Phys. 2014 Jun 21;16(23):11729-36. doi: 10.1039/c4cp00675e. Epub 2014 May 9.


The relationships between XPC binding to conformationally diverse DNA adducts and their excision by the human NER system: is there a correlation?

Lee YC, Cai Y, Mu H, Broyde S, Amin S, Chen X, Min JH, Geacintov NE.

DNA Repair (Amst). 2014 Jul;19:55-63. doi: 10.1016/j.dnarep.2014.03.026. Epub 2014 Apr 29.


Mechanistic aspects of hydration of guanine radical cations in DNA.

Rokhlenko Y, Cadet J, Geacintov NE, Shafirovich V.

J Am Chem Soc. 2014 Apr 23;136(16):5956-62. doi: 10.1021/ja412471u. Epub 2014 Apr 15.


Nuclear magnetic resonance studies of an N2-guanine adduct derived from the tumorigen dibenzo[a,l]pyrene in DNA: impact of adduct stereochemistry, size, and local DNA sequence on solution conformations.

Rodríguez FA, Liu Z, Lin CH, Ding S, Cai Y, Kolbanovskiy A, Kolbanovskiy M, Amin S, Broyde S, Geacintov NE.

Biochemistry. 2014 Mar 25;53(11):1827-41. doi: 10.1021/bi4017044. Epub 2014 Mar 11.


Structural basis for the recognition of diastereomeric 5',8-cyclo-2'-deoxypurine lesions by the human nucleotide excision repair system.

Kropachev K, Ding S, Terzidis MA, Masi A, Liu Z, Cai Y, Kolbanovskiy M, Chatgilialoglu C, Broyde S, Geacintov NE, Shafirovich V.

Nucleic Acids Res. 2014 Apr;42(8):5020-32. doi: 10.1093/nar/gku162. Epub 2014 Mar 10.


One-electron oxidation reactions of purine and pyrimidine bases in cellular DNA.

Cadet J, Wagner JR, Shafirovich V, Geacintov NE.

Int J Radiat Biol. 2014 Jun;90(6):423-32. doi: 10.3109/09553002.2013.877176. Epub 2014 Apr 3. Review.


Ribonucleotides as nucleotide excision repair substrates.

Cai Y, Geacintov NE, Broyde S.

DNA Repair (Amst). 2014 Jan;13:55-60. doi: 10.1016/j.dnarep.2013.10.010. Epub 2013 Nov 26.


Adenine-DNA adduct derived from the nitroreduction of 6-nitrochrysene is more resistant to nucleotide excision repair than guanine-DNA adducts.

Krzeminski J, Kropachev K, Reeves D, Kolbanovskiy A, Kolbanovskiy M, Chen KM, Sharma AK, Geacintov N, Amin S, El-Bayoumy K.

Chem Res Toxicol. 2013 Nov 18;26(11):1746-54. doi: 10.1021/tx400296x. Epub 2013 Oct 30.


Role of structural and energetic factors in regulating repair of a bulky DNA lesion with different opposite partner bases.

Mu H, Kropachev K, Chen Y, Zhang H, Cai Y, Geacintov NE, Broyde S.

Biochemistry. 2013 Aug 20;52(33):5517-21. doi: 10.1021/bi4009177. Epub 2013 Aug 5.


Free energy profiles of base flipping in intercalative polycyclic aromatic hydrocarbon-damaged DNA duplexes: energetic and structural relationships to nucleotide excision repair susceptibility.

Cai Y, Zheng H, Ding S, Kropachev K, Schwaid AG, Tang Y, Mu H, Wang S, Geacintov NE, Zhang Y, Broyde S.

Chem Res Toxicol. 2013 Jul 15;26(7):1115-25. doi: 10.1021/tx400156a. Epub 2013 Jul 2.


Generation of guanine-thymine cross-links in human cells by one-electron oxidation mechanisms.

Madugundu GS, Wagner JR, Cadet J, Kropachev K, Yun BH, Geacintov NE, Shafirovich V.

Chem Res Toxicol. 2013 Jul 15;26(7):1031-3. doi: 10.1021/tx400158g. Epub 2013 Jun 11.


Adenine-DNA adducts derived from the highly tumorigenic Dibenzo[a,l]pyrene are resistant to nucleotide excision repair while guanine adducts are not.

Kropachev K, Kolbanovskiy M, Liu Z, Cai Y, Zhang L, Schwaid AG, Kolbanovskiy A, Ding S, Amin S, Broyde S, Geacintov NE.

Chem Res Toxicol. 2013 May 20;26(5):783-93. doi: 10.1021/tx400080k. Epub 2013 Apr 24.


Genomic assay reveals tolerance of DNA damage by both translesion DNA synthesis and homology-dependent repair in mammalian cells.

Izhar L, Ziv O, Cohen IS, Geacintov NE, Livneh Z.

Proc Natl Acad Sci U S A. 2013 Apr 16;110(16):E1462-9. doi: 10.1073/pnas.1216894110. Epub 2013 Mar 25.


Thermodynamic profiles and nuclear magnetic resonance studies of oligonucleotide duplexes containing single diastereomeric spiroiminodihydantoin lesions.

Khutsishvili I, Zhang N, Marky LA, Crean C, Patel DJ, Geacintov NE, Shafirovich V.

Biochemistry. 2013 Feb 26;52(8):1354-63. doi: 10.1021/bi301566v. Epub 2013 Feb 13.


Nuclear magnetic resonance solution structure of an N(2)-guanine DNA adduct derived from the potent tumorigen dibenzo[a,l]pyrene: intercalation from the minor groove with ruptured Watson-Crick base pairing.

Tang Y, Liu Z, Ding S, Lin CH, Cai Y, Rodriguez FA, Sayer JM, Jerina DM, Amin S, Broyde S, Geacintov NE.

Biochemistry. 2012 Dec 4;51(48):9751-62. doi: 10.1021/bi3013577. Epub 2012 Nov 15.


Probing murine methyltransfease Dnmt3a interactions with benzo[a]pyrene-modified DNA by fluorescence methods.

Minero AS, Lukashevich OV, Cherepanova NA, Kolbanovskiy A, Geacintov NE, Gromova ES.

FEBS J. 2012 Oct;279(20):3965-80. doi: 10.1111/j.1742-4658.2012.08756.x. Epub 2012 Sep 11.


Nucleotide excision repair of 2-acetylaminofluorene- and 2-aminofluorene-(C8)-guanine adducts: molecular dynamics simulations elucidate how lesion structure and base sequence context impact repair efficiencies.

Mu H, Kropachev K, Wang L, Zhang L, Kolbanovskiy A, Kolbanovskiy M, Geacintov NE, Broyde S.

Nucleic Acids Res. 2012 Oct;40(19):9675-90. doi: 10.1093/nar/gks788. Epub 2012 Aug 16.


Preferred WMSA catalytic mechanism of the nucleotidyl transfer reaction in human DNA polymerase κ elucidates error-free bypass of a bulky DNA lesion.

Lior-Hoffmann L, Wang L, Wang S, Geacintov NE, Broyde S, Zhang Y.

Nucleic Acids Res. 2012 Oct;40(18):9193-205. doi: 10.1093/nar/gks653. Epub 2012 Jul 5.


Proton-coupled hole hopping in nucleosomal and free DNA initiated by site-specific hole injection.

Liu Y, Liu Z, Geacintov NE, Shafirovich V.

Phys Chem Chem Phys. 2012 May 28;14(20):7400-10. doi: 10.1039/c2cp40759k. Epub 2012 Apr 24.

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