| Year |
Citation |
Score |
| 2024 |
Gao S, Oden PN, Ryan BJ, Yang H, Freudenthal BD, Greenberg MM. Biochemical and Structural Characterization of Fapy•dG Replication by Human DNA Polymerase β. Biorxiv : the Preprint Server For Biology. PMID 38293220 DOI: 10.1101/2024.01.15.575758 |
0.4 |
|
| 2024 |
Schaich MA, Weaver TM, Roginskaya V, Freudenthal BD, Van Houten B. Single-molecule analysis of purified proteins and nuclear extracts: Insights from 8-oxoguanine glycosylase 1. Dna Repair. 134: 103625. PMID 38237481 DOI: 10.1016/j.dnarep.2024.103625 |
0.831 |
|
| 2023 |
Schaich MA, Weaver TM, Roginskaya V, Freudenthal BD, Van Houten B. Single-molecule analysis of purified proteins and nuclear extracts: insights from 8-oxoguanine glycosylase 1. Biorxiv : the Preprint Server For Biology. PMID 37961208 DOI: 10.1101/2023.11.01.565178 |
0.831 |
|
| 2023 |
Schnable BL, Schaich MA, Roginskaya V, Leary LP, Weaver TM, Freudenthal BD, Drohat AC, Van Houten B. Single-molecule analysis reveals TDG exhibits multiple modes of linear diffusion to process 5-formylcytosine. Biorxiv : the Preprint Server For Biology. PMID 37873231 DOI: 10.1101/2023.10.04.560925 |
0.845 |
|
| 2023 |
Hussen AS, Kravitz HL, Freudenthal BD, Whitaker AM. Oxidative DNA damage on the VEGF G-quadruplex forming promoter is repaired via long-patch BER. Environmental and Molecular Mutagenesis. PMID 37606505 DOI: 10.1002/em.22570 |
0.751 |
|
| 2023 |
Ryan BJ, Weaver TM, Spencer JJ, Freudenthal BD. Generation of Recombinant Nucleosomes Containing Site-Specific DNA Damage. Methods in Molecular Biology (Clifton, N.J.). 2701: 55-76. PMID 37574475 DOI: 10.1007/978-1-0716-3373-1_4 |
0.861 |
|
| 2023 |
Hoitsma NM, Norris J, Khoang TH, Kaushik V, Chadda R, Antony E, Hedglin M, Freudenthal BD. Mechanistic insight into AP-endonuclease 1 cleavage of abasic sites at stalled replication fork mimics. Nucleic Acids Research. PMID 37264933 DOI: 10.1093/nar/gkad481 |
0.845 |
|
| 2023 |
Fairlamb MS, Spies M, Washington TM, Freudenthal BD. Visualizing the coordination of apurinic/apyrimidinic endonuclease (APE1) and DNA Polymerase β during Base Excision Repair. The Journal of Biological Chemistry. 104636. PMID 36963489 DOI: 10.1016/j.jbc.2023.104636 |
0.831 |
|
| 2023 |
Welfer GA, Freudenthal BD. Recent advancements in the structural biology of human telomerase and their implications for improved design of cancer therapeutics. Nar Cancer. 5: zcad010. PMID 36879683 DOI: 10.1093/narcan/zcad010 |
0.779 |
|
| 2023 |
Welfer GA, Borin VA, Cortez LM, Opresko PL, Agarwal PK, Freudenthal BD. Altered Nucleotide Insertion Mechanisms of Disease-Associated TERT Variants. Genes. 14. PMID 36833208 DOI: 10.3390/genes14020281 |
0.799 |
|
| 2022 |
Freund N, Taylor AI, Arangundy-Franklin S, Subramanian N, Peak-Chew SY, Whitaker AM, Freudenthal BD, Abramov M, Herdewijn P, Holliger P. A two-residue nascent-strand steric gate controls synthesis of 2'-O-methyl- and 2'-O-(2-methoxyethyl)-RNA. Nature Chemistry. PMID 36229679 DOI: 10.1038/s41557-022-01050-8 |
0.63 |
|
| 2022 |
Weaver TM, Washington MT, Freudenthal BD. New insights into DNA polymerase mechanisms provided by time-lapse crystallography. Current Opinion in Structural Biology. 77: 102465. PMID 36174287 DOI: 10.1016/j.sbi.2022.102465 |
0.846 |
|
| 2022 |
Weaver TM, Hoitsma NM, Spencer JJ, Gakhar L, Schnicker NJ, Freudenthal BD. Structural basis for APE1 processing DNA damage in the nucleosome. Nature Communications. 13: 5390. PMID 36104361 DOI: 10.1038/s41467-022-33057-7 |
0.842 |
|
| 2022 |
Whitaker AM, Stark WJ, Freudenthal BD. Processing oxidatively damaged bases at DNA strand breaks by APE1. Nucleic Acids Research. PMID 36018803 DOI: 10.1093/nar/gkac695 |
0.797 |
|
| 2022 |
Weaver TM, Click TH, Khoang TH, Todd Washington M, Agarwal PK, Freudenthal BD. Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1. Nature Communications. 13: 2876. PMID 35610266 DOI: 10.1038/s41467-022-30577-0 |
0.791 |
|
| 2022 |
Ryan BJ, Yang H, Bacurio JHT, Smith MR, Basu AK, Greenberg MM, Freudenthal BD. Structural Dynamics of a Common Mutagenic Oxidative DNA Lesion in Duplex DNA and during DNA Replication. Journal of the American Chemical Society. PMID 35499923 DOI: 10.1021/jacs.2c00193 |
0.715 |
|
| 2021 |
Bacurio JHT, Yang H, Naldiga S, Powell BV, Ryan BJ, Freudenthal BD, Greenberg MM, Basu AK. Sequence context effects of replication of Fapy•dG in three mutational hot spot sequences of the p53 gene in human cells. Dna Repair. 108: 103213. PMID 34464900 DOI: 10.1016/j.dnarep.2021.103213 |
0.688 |
|
| 2021 |
Sanford SL, Welfer GA, Freudenthal BD, Opresko PL. How DNA damage and non-canonical nucleotides alter the telomerase catalytic cycle. Dna Repair. 107: 103198. PMID 34371388 DOI: 10.1016/j.dnarep.2021.103198 |
0.832 |
|
| 2021 |
Fairlamb MS, Whitaker AM, Bain FE, Spies M, Freudenthal BD. Construction of a Three-Color Prism-Based TIRF Microscope to Study the Interactions and Dynamics of Macromolecules. Biology. 10. PMID 34201434 DOI: 10.3390/biology10070571 |
0.796 |
|
| 2021 |
Hoitsma NM, Click TH, Agarwal PK, Freudenthal BD. Altered APE1 activity on abasic ribonucleotides is mediated by changes in the nucleoside sugar pucker. Computational and Structural Biotechnology Journal. 19: 3293-3302. PMID 34188778 DOI: 10.1016/j.csbj.2021.05.035 |
0.833 |
|
| 2021 |
Machen AJ, Fisher MT, Freudenthal BD. Anthrax toxin translocation complex reveals insight into the lethal factor unfolding and refolding mechanism. Scientific Reports. 11: 13038. PMID 34158520 DOI: 10.1038/s41598-021-91596-3 |
0.775 |
|
| 2021 |
Varela FA, Freudenthal BD. Mechanism of Deoxyguanosine Diphosphate Insertion by Human DNA Polymerase β. Biochemistry. PMID 33475337 DOI: 10.1021/acs.biochem.0c00847 |
0.447 |
|
| 2020 |
Whitaker AM, Freudenthal BD. History of DNA polymerase β X-ray crystallography. Dna Repair. 93: 102928. PMID 33087265 DOI: 10.1016/j.dnarep.2020.102928 |
0.75 |
|
| 2020 |
Sanford SL, Welfer GA, Freudenthal BD, Opresko PL. Mechanisms of telomerase inhibition by oxidized and therapeutic dNTPs. Nature Communications. 11: 5288. PMID 33082336 DOI: 10.1038/s41467-020-19115-y |
0.786 |
|
| 2020 |
Weaver TM, Cortez LM, Khoang TH, Washington MT, Agarwal PK, Freudenthal BD. Visualizing Rev1 catalyze protein-template DNA synthesis. Proceedings of the National Academy of Sciences of the United States of America. PMID 32999062 DOI: 10.1073/pnas.2010484117 |
0.85 |
|
| 2020 |
Hoitsma NM, Whitaker AM, Beckwitt EC, Jang S, Agarwal PK, Van Houten B, Freudenthal BD. AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop. Nucleic Acids Research. PMID 32542366 DOI: 10.1093/Nar/Gkaa496 |
0.86 |
|
| 2020 |
Schaich MA, Sanford SL, Welfer GA, Johnson SA, Khoang TH, Opresko PL, Freudenthal BD. Mechanisms of nucleotide selection by telomerase. Elife. 9. PMID 32501800 DOI: 10.7554/Elife.55438 |
0.798 |
|
| 2020 |
Whitaker AM, Stark WJ, Flynn TS, Freudenthal BD. Molecular and structural characterization of disease-associated APE1 polymorphisms. Dna Repair. 91: 102867. PMID 32454397 DOI: 10.1016/J.Dnarep.2020.102867 |
0.791 |
|
| 2020 |
Schaich MA, Sanford SL, Welfer GA, Johnson SA, Khoang TH, Opresko PL, Freudenthal BD. Author response: Mechanisms of nucleotide selection by telomerase Elife. DOI: 10.7554/Elife.55438.Sa2 |
0.746 |
|
| 2020 |
Smith MR, Alnajjar KS, Hoitsma NM, Sweasy JB, Freudenthal BD. Molecular characterization of oxidized ribonucleotide insertion by human DNA polymerase beta Journal of Biological Chemistry. DOI: 10.2210/Pdb6Uol/Pdb |
0.812 |
|
| 2019 |
Smith MR, Alnajjar KS, Hoitsma NM, Sweasy JB, Freudenthal BD. Molecular and structural characterization of oxidized ribonucleotide insertion into DNA by human DNA polymerase β. The Journal of Biological Chemistry. PMID 31892517 DOI: 10.1074/Jbc.Ra119.011569 |
0.835 |
|
| 2019 |
McNeill DR, Whitaker AM, Stark WJ, Illuzzi JL, McKinnon PJ, Freudenthal BD, Wilson DM. Functions of the major abasic endonuclease (APE1) in cell viability and genotoxin resistance. Mutagenesis. PMID 31816044 DOI: 10.2210/Pdb6P93/Pdb |
0.78 |
|
| 2019 |
Hoitsma NM, Whitaker AM, Schaich MA, Smith MR, Fairlamb MS, Freudenthal BD. Structure and function relationships in mammalian DNA polymerases. Cellular and Molecular Life Sciences : Cmls. PMID 31722068 DOI: 10.1007/S00018-019-03368-Y |
0.812 |
|
| 2019 |
Akakpo JY, Ramachandran A, Duan L, Schaich MA, Jaeschke MW, Freudenthal BD, Ding WX, Rumack BH, Jaeschke H. Delayed Treatment with 4-Methylpyrazole Protects against Acetaminophen Hepatotoxicity in Mice by Inhibition of c-Jun N-Terminal Kinase. Toxicological Sciences : An Official Journal of the Society of Toxicology. PMID 30903181 DOI: 10.1093/Toxsci/Kfz077 |
0.738 |
|
| 2019 |
Smith MR, Shock DD, Beard WA, Greenberg MM, Freudenthal BD, Wilson SH. A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition. Nucleic Acids Research. PMID 30649431 DOI: 10.1093/nar/gkz002 |
0.552 |
|
| 2018 |
Whitaker AM, Freudenthal BD. APE1: A skilled nucleic acid surgeon. Dna Repair. PMID 30170830 DOI: 10.1016/J.Dnarep.2018.08.012 |
0.799 |
|
| 2018 |
Fairlamb MS, Whitaker AM, Freudenthal BD. Apurinic/apyrimidinic (AP) endonuclease 1 processing of AP sites with 5' mismatches. Acta Crystallographica. Section D, Structural Biology. 74: 760-768. PMID 30082511 DOI: 10.1107/S2059798318003340 |
0.825 |
|
| 2018 |
Whitaker AM, Flynn TS, Freudenthal BD. Molecular snapshots of APE1 proofreading mismatches and removing DNA damage. Nature Communications. 9: 399. PMID 29374164 DOI: 10.1038/S41467-017-02175-Y |
0.807 |
|
| 2018 |
Bastola P, Freudenthal B, Schaich M, Chou T, Gan T, Wang F, Chien J. Abstract A40: Specific mutations in the D1-D2 linker region of VCP/p97 enhance ATPase activity and confer resistance to VCP inhibitors Clinical Cancer Research. 24. DOI: 10.1158/1557-3265.Ovca17-A40 |
0.748 |
|
| 2017 |
Bastola P, Wang F, Schaich MA, Gan T, Freudenthal BD, Chou TF, Chien J. Specific mutations in the D1-D2 linker region of VCP/p97 enhance ATPase activity and confer resistance to VCP inhibitors. Cell Death Discovery. 3: 17065. PMID 29367883 DOI: 10.1038/Cddiscovery.2017.65 |
0.752 |
|
| 2017 |
Liu L, Kong M, Gassman NR, Freudenthal BD, Prasad R, Zhen S, Watkins SC, Wilson SH, Van Houten B. PARP1 changes from three-dimensional DNA damage searching to one-dimensional diffusion after auto-PARylation or in the presence of APE1. Nucleic Acids Research. PMID 29121337 DOI: 10.1093/Nar/Gkx1047 |
0.585 |
|
| 2017 |
Schaich MA, Smith MR, Cloud AS, Holloran SM, Freudenthal BD. Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues. Chemical Research in Toxicology. PMID 28862449 DOI: 10.1021/Acs.Chemrestox.7B00173 |
0.856 |
|
| 2017 |
Shock DD, Freudenthal BD, Beard WA, Wilson SH. Modulating the DNA polymerase β reaction equilibrium to dissect the reverse reaction. Nature Chemical Biology. PMID 28759020 DOI: 10.1038/Nchembio.2450 |
0.444 |
|
| 2017 |
Liu J, Ede C, Wright WD, Gore SK, Jenkins SS, Freudenthal BD, Todd Washington M, Veaute X, Heyer WD. Srs2 promotes synthesis-dependent strand annealing by disrupting DNA polymerase δ-extending D-loops. Elife. 6. PMID 28535142 DOI: 10.7554/Elife.22195 |
0.458 |
|
| 2017 |
Whitaker AM, Smith MR, Schaich MA, Freudenthal BD. Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Research. PMID 28449123 DOI: 10.1093/Nar/Gkx293 |
0.865 |
|
| 2017 |
Whitaker AM, Schaich MA, Smith MS, Flynn TS, Freudenthal BD. Base excision repair of oxidative DNA damage: from mechanism to disease. Frontiers in Bioscience (Landmark Edition). 22: 1493-1522. PMID 28199214 DOI: 10.2741/4555 |
0.846 |
|
| 2017 |
Perera L, Freudenthal BD, Beard WA, Pedersen LG, Wilson SH. Revealing the role of the product metal in DNA polymerase β catalysis. Nucleic Acids Research. PMID 28108654 DOI: 10.1093/Nar/Gkw1363 |
0.407 |
|
| 2017 |
Liu J, Ede C, Wright WD, Gore SK, Jenkins SS, Freudenthal BD, Washington MT, Veaute X, Heyer W. Author response: Srs2 promotes synthesis-dependent strand annealing by disrupting DNA polymerase δ-extending D-loops Elife. DOI: 10.7554/Elife.22195.035 |
0.704 |
|
| 2016 |
Fouquerel E, Lormand J, Bose A, Lee HT, Kim GS, Li J, Sobol RW, Freudenthal BD, Myong S, Opresko PL. Oxidative guanine base damage regulates human telomerase activity. Nature Structural & Molecular Biology. PMID 27820808 DOI: 10.1038/Nsmb.3319 |
0.481 |
|
| 2016 |
Kim T, Freudenthal BD, Beard WA, Wilson SH, Schlick T. Insertion of oxidized nucleotide triggers rapid DNA polymerase opening. Nucleic Acids Research. PMID 27034465 DOI: 10.1093/Nar/Gkw174 |
0.465 |
|
| 2015 |
Freudenthal BD, Beard WA, Cuneo MJ, Dyrkheeva NS, Wilson SH. Capturing snapshots of APE1 processing DNA damage. Nature Structural & Molecular Biology. PMID 26458045 DOI: 10.1038/Nsmb.3105 |
0.582 |
|
| 2015 |
Perera L, Freudenthal BD, Beard WA, Shock DD, Pedersen LG, Wilson SH. Requirement for transient metal ions revealed through computational analysis for DNA polymerase going in reverse. Proceedings of the National Academy of Sciences of the United States of America. 112: E5228-36. PMID 26351676 DOI: 10.1073/Pnas.1511207112 |
0.411 |
|
| 2015 |
Fedeles BI, Freudenthal BD, Yau E, Singh V, Chang SC, Li D, Delaney JC, Wilson SH, Essigmann JM. Intrinsic mutagenic properties of 5-chlorocytosine: A mechanistic connection between chronic inflammation and cancer. Proceedings of the National Academy of Sciences of the United States of America. 112: E4571-80. PMID 26243878 DOI: 10.1073/Pnas.1507709112 |
0.352 |
|
| 2015 |
Freudenthal BD, Beard WA, Wilson SH. New structural snapshots provide molecular insights into the mechanism of high fidelity DNA synthesis. Dna Repair. PMID 26002198 DOI: 10.1016/J.Dnarep.2015.04.007 |
0.56 |
|
| 2015 |
Tsutakawa SE, Yan C, Xu X, Weinacht CP, Freudenthal BD, Yang K, Zhuang Z, Washington MT, Tainer JA, Ivanov I. Structurally distinct ubiquitin- and sumo-modified PCNA: implications for their distinct roles in the DNA damage response. Structure (London, England : 1993). 23: 724-33. PMID 25773143 DOI: 10.1016/J.Str.2015.02.008 |
0.719 |
|
| 2015 |
Freudenthal BD, Beard WA, Perera L, Shock DD, Kim T, Schlick T, Wilson SH. Uncovering the polymerase-induced cytotoxicity of an oxidized nucleotide. Nature. 517: 635-9. PMID 25409153 DOI: 10.1038/Nature13886 |
0.539 |
|
| 2014 |
Prasad R, Horton JK, Chastain PD, Gassman NR, Freudenthal BD, Hou EW, Wilson SH. Suicidal cross-linking of PARP-1 to AP site intermediates in cells undergoing base excision repair. Nucleic Acids Research. 42: 6337-51. PMID 24771347 DOI: 10.1093/Nar/Gku288 |
0.57 |
|
| 2014 |
Li Y, Freudenthal BD, Beard WA, Wilson SH, Schlick T. Optimal and variant metal-ion routes in DNA polymerase β's conformational pathways. Journal of the American Chemical Society. 136: 3630-9. PMID 24511902 DOI: 10.1021/Ja412701F |
0.416 |
|
| 2014 |
Freudenthal BD, Beard WA, Wilson SH. Watching a DNA polymerase in action. Cell Cycle (Georgetown, Tex.). 13: 691-2. PMID 24424116 DOI: 10.4161/Cc.27789 |
0.594 |
|
| 2014 |
Tsutakawa S, Yan C, Xu X, Freudenthal B, Weinacht C, Zhuang Z, Washington T, Ivanov I. Structurally Distinct Complexes of Ubiquitin and Sumo-Modified PCNA Lead to Distinct DNA Damage Response Pathways Biophysical Journal. 106: 691a. DOI: 10.1016/J.Bpj.2013.11.3823 |
0.499 |
|
| 2013 |
Freudenthal BD, Beard WA, Shock DD, Wilson SH. Observing a DNA polymerase choose right from wrong. Cell. 154: 157-68. PMID 23827680 DOI: 10.1016/J.Cell.2013.05.048 |
0.564 |
|
| 2013 |
Freudenthal BD, Beard WA, Wilson SH. DNA polymerase minor groove interactions modulate mutagenic bypass of a templating 8-oxoguanine lesion. Nucleic Acids Research. 41: 1848-58. PMID 23267011 DOI: 10.1093/Nar/Gks1276 |
0.522 |
|
| 2012 |
Freudenthal BD, Beard WA, Wilson SH. Structures of dNTP intermediate states during DNA polymerase active site assembly. Structure (London, England : 1993). 20: 1829-37. PMID 22959623 DOI: 10.1016/J.Str.2012.08.008 |
0.549 |
|
| 2012 |
Dieckman LM, Freudenthal BD, Washington MT. PCNA structure and function: insights from structures of PCNA complexes and post-translationally modified PCNA. Sub-Cellular Biochemistry. 62: 281-99. PMID 22918591 DOI: 10.1007/978-94-007-4572-8_15 |
0.856 |
|
| 2011 |
Tsutakawa SE, Van Wynsberghe AW, Freudenthal BD, Weinacht CP, Gakhar L, Washington MT, Zhuang Z, Tainer JA, Ivanov I. Solution X-ray scattering combined with computational modeling reveals multiple conformations of covalently bound ubiquitin on PCNA. Proceedings of the National Academy of Sciences of the United States of America. 108: 17672-7. PMID 22006297 DOI: 10.1073/Pnas.1110480108 |
0.765 |
|
| 2011 |
Freudenthal BD, Brogie JE, Gakhar L, Kondratick CM, Washington MT. Crystal structure of SUMO-modified proliferating cell nuclear antigen. Journal of Molecular Biology. 406: 9-17. PMID 21167178 DOI: 10.1016/J.Jmb.2010.12.015 |
0.812 |
|
| 2010 |
Freudenthal BD, Gakhar L, Ramaswamy S, Washington MT. Structure of monoubiquitinated PCNA and implications for translesion synthesis and DNA polymerase exchange. Nature Structural & Molecular Biology. 17: 479-84. PMID 20305653 DOI: 10.1038/Nsmb.1776 |
0.807 |
|
| 2010 |
Washington MT, Carlson KD, Freudenthal BD, Pryor JM. Variations on a theme: eukaryotic Y-family DNA polymerases. Biochimica Et Biophysica Acta. 1804: 1113-23. PMID 19616647 DOI: 10.1016/J.Bbapap.2009.07.004 |
0.819 |
|
| 2009 |
Freudenthal BD, Gakhar L, Ramaswamy S, Washington MT. A charged residue at the subunit interface of PCNA promotes trimer formation by destabilizing alternate subunit interactions. Acta Crystallographica. Section D, Biological Crystallography. 65: 560-6. PMID 19465770 DOI: 10.1107/S0907444909011329 |
0.734 |
|
| 2008 |
Freudenthal BD, Ramaswamy S, Hingorani MM, Washington MT. Structure of a mutant form of proliferating cell nuclear antigen that blocks translesion DNA synthesis. Biochemistry. 47: 13354-61. PMID 19053247 DOI: 10.1021/Bi8017762 |
0.695 |
|
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