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Items: 25

1.

Muver, a computational framework for accurately calling accumulated mutations.

Burkholder AB, Lujan SA, Lavender CA, Grimm SA, Kunkel TA, Fargo DC.

BMC Genomics. 2018 May 9;19(1):345. doi: 10.1186/s12864-018-4753-3.

2.

Evidence that DNA polymerase δ contributes to initiating leading strand DNA replication in Saccharomyces cerevisiae.

Garbacz MA, Lujan SA, Burkholder AB, Cox PB, Wu Q, Zhou ZX, Haber JE, Kunkel TA.

Nat Commun. 2018 Feb 27;9(1):858. doi: 10.1038/s41467-018-03270-4.

3.

Mapping Ribonucleotides Incorporated into DNA by Hydrolytic End-Sequencing.

Orebaugh CD, Lujan SA, Burkholder AB, Clausen AR, Kunkel TA.

Methods Mol Biol. 2018;1672:329-345. doi: 10.1007/978-1-4939-7306-4_23.

PMID:
29043634
4.

Hypermutation signature reveals a slippage and realignment model of translesion synthesis by Rev3 polymerase in cisplatin-treated yeast.

Segovia R, Shen Y, Lujan SA, Jones SJ, Stirling PC.

Proc Natl Acad Sci U S A. 2017 Mar 7;114(10):2663-2668. doi: 10.1073/pnas.1618555114. Epub 2017 Feb 21.

5.

DNA Polymerases Divide the Labor of Genome Replication.

Lujan SA, Williams JS, Kunkel TA.

Trends Cell Biol. 2016 Sep;26(9):640-654. doi: 10.1016/j.tcb.2016.04.012. Epub 2016 Jun 1. Review.

6.

Processing ribonucleotides incorporated during eukaryotic DNA replication.

Williams JS, Lujan SA, Kunkel TA.

Nat Rev Mol Cell Biol. 2016 Jun;17(6):350-63. doi: 10.1038/nrm.2016.37. Epub 2016 Apr 20. Review.

7.

Eukaryotic genome instability in light of asymmetric DNA replication.

Lujan SA, Williams JS, Kunkel TA.

Crit Rev Biochem Mol Biol. 2016;51(1):43-52. doi: 10.3109/10409238.2015.1117055. Epub 2015 Dec 20. Review.

8.

Genome-wide analysis of the specificity and mechanisms of replication infidelity driven by imbalanced dNTP pools.

Watt DL, Buckland RJ, Lujan SA, Kunkel TA, Chabes A.

Nucleic Acids Res. 2016 Feb 29;44(4):1669-80. doi: 10.1093/nar/gkv1298. Epub 2015 Nov 24.

9.

Stimulation of Chromosomal Rearrangements by Ribonucleotides.

Conover HN, Lujan SA, Chapman MJ, Cornelio DA, Sharif R, Williams JS, Clark AB, Camilo F, Kunkel TA, Argueso JL.

Genetics. 2015 Nov;201(3):951-61. doi: 10.1534/genetics.115.181149. Epub 2015 Sep 22.

10.

Quantifying the contributions of base selectivity, proofreading and mismatch repair to nuclear DNA replication in Saccharomyces cerevisiae.

St Charles JA, Liberti SE, Williams JS, Lujan SA, Kunkel TA.

DNA Repair (Amst). 2015 Jul;31:41-51. doi: 10.1016/j.dnarep.2015.04.006. Epub 2015 Apr 25.

11.

Differences in genome-wide repeat sequence instability conferred by proofreading and mismatch repair defects.

Lujan SA, Clark AB, Kunkel TA.

Nucleic Acids Res. 2015 Apr 30;43(8):4067-74. doi: 10.1093/nar/gkv271. Epub 2015 Mar 30.

12.

Evidence that processing of ribonucleotides in DNA by topoisomerase 1 is leading-strand specific.

Williams JS, Clausen AR, Lujan SA, Marjavaara L, Clark AB, Burgers PM, Chabes A, Kunkel TA.

Nat Struct Mol Biol. 2015 Apr;22(4):291-7. doi: 10.1038/nsmb.2989. Epub 2015 Mar 9.

13.

Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation.

Clausen AR, Lujan SA, Burkholder AB, Orebaugh CD, Williams JS, Clausen MF, Malc EP, Mieczkowski PA, Fargo DC, Smith DJ, Kunkel TA.

Nat Struct Mol Biol. 2015 Mar;22(3):185-91. doi: 10.1038/nsmb.2957. Epub 2015 Jan 26.

14.

Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition.

Lujan SA, Clausen AR, Clark AB, MacAlpine HK, MacAlpine DM, Malc EP, Mieczkowski PA, Burkholder AB, Fargo DC, Gordenin DA, Kunkel TA.

Genome Res. 2014 Nov;24(11):1751-64. doi: 10.1101/gr.178335.114. Epub 2014 Sep 12.

15.

Ribonucleotides are signals for mismatch repair of leading-strand replication errors.

Lujan SA, Williams JS, Clausen AR, Clark AB, Kunkel TA.

Mol Cell. 2013 May 9;50(3):437-43. doi: 10.1016/j.molcel.2013.03.017. Epub 2013 Apr 18.

16.

Topoisomerase 1-mediated removal of ribonucleotides from nascent leading-strand DNA.

Williams JS, Smith DJ, Marjavaara L, Lujan SA, Chabes A, Kunkel TA.

Mol Cell. 2013 Mar 7;49(5):1010-5. doi: 10.1016/j.molcel.2012.12.021. Epub 2013 Jan 31.

17.

Mismatch repair balances leading and lagging strand DNA replication fidelity.

Lujan SA, Williams JS, Pursell ZF, Abdulovic-Cui AA, Clark AB, Nick McElhinny SA, Kunkel TA.

PLoS Genet. 2012;8(10):e1003016. doi: 10.1371/journal.pgen.1003016. Epub 2012 Oct 11.

18.

DNA polymerase zeta generates clustered mutations during bypass of endogenous DNA lesions in Saccharomyces cerevisiae.

Stone JE, Lujan SA, Kunkel TA, Kunkel TA.

Environ Mol Mutagen. 2012 Dec;53(9):777-86. doi: 10.1002/em.21728. Epub 2012 Sep 11.

19.

Mismatch repair-independent tandem repeat sequence instability resulting from ribonucleotide incorporation by DNA polymerase ε.

Clark AB, Lujan SA, Kissling GE, Kunkel TA.

DNA Repair (Amst). 2011 May 5;10(5):476-82. doi: 10.1016/j.dnarep.2011.02.001. Epub 2011 Mar 16.

20.

Genome-wide model for the normal eukaryotic DNA replication fork.

Larrea AA, Lujan SA, Nick McElhinny SA, Mieczkowski PA, Resnick MA, Gordenin DA, Kunkel TA.

Proc Natl Acad Sci U S A. 2010 Oct 12;107(41):17674-9. doi: 10.1073/pnas.1010178107. Epub 2010 Sep 27.

21.

SnapShot: DNA mismatch repair.

Larrea AA, Lujan SA, Kunkel TA.

Cell. 2010 May 14;141(4):730.e1. doi: 10.1016/j.cell.2010.05.002. No abstract available.

22.

The mechanism and control of DNA transfer by the conjugative relaxase of resistance plasmid pCU1.

Nash RP, Habibi S, Cheng Y, Lujan SA, Redinbo MR.

Nucleic Acids Res. 2010 Sep;38(17):5929-43. doi: 10.1093/nar/gkq303. Epub 2010 May 6.

23.

Low-fidelity DNA synthesis by the L979F mutator derivative of Saccharomyces cerevisiae DNA polymerase zeta.

Stone JE, Kissling GE, Lujan SA, Rogozin IB, Stith CM, Burgers PM, Kunkel TA.

Nucleic Acids Res. 2009 Jun;37(11):3774-87. doi: 10.1093/nar/gkp238. Epub 2009 Apr 20.

24.

Winning the asymmetric war: new strategies for combating antibacterial resistance.

Potts RG, Lujan SA, Redinbo MR.

Future Microbiol. 2008 Apr;3(2):119-23. doi: 10.2217/17460913.3.2.119. No abstract available.

25.

Disrupting antibiotic resistance propagation by inhibiting the conjugative DNA relaxase.

Lujan SA, Guogas LM, Ragonese H, Matson SW, Redinbo MR.

Proc Natl Acad Sci U S A. 2007 Jul 24;104(30):12282-7. Epub 2007 Jul 13.

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