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Role of recombination and replication fork restart in repeat instability.

Polleys EJ, House NCM, Freudenreich CH.

DNA Repair (Amst). 2017 Aug;56:156-165. doi: 10.1016/j.dnarep.2017.06.018. Epub 2017 Jun 9. Review.


Inheritance patterns of ATCCT repeat interruptions in spinocerebellar ataxia type 10 (SCA10) expansions.

Landrian I, McFarland KN, Liu J, Mulligan CJ, Rasmussen A, Ashizawa T.

PLoS One. 2017 Apr 19;12(4):e0175958. doi: 10.1371/journal.pone.0175958. eCollection 2017.


Imaging of DNA and Protein-DNA Complexes with Atomic Force Microscopy.

Lyubchenko YL, Shlyakhtenko LS.

Crit Rev Eukaryot Gene Expr. 2016;26(1):63-96. doi: 10.1615/CritRevEukaryotGeneExpr.v26.i1.70.


Repeat instability during DNA repair: Insights from model systems.

Usdin K, House NC, Freudenreich CH.

Crit Rev Biochem Mol Biol. 2015 Mar-Apr;50(2):142-67. doi: 10.3109/10409238.2014.999192. Epub 2015 Jan 22. Review.


Transgenic models of spinocerebellar ataxia type 10: modeling a repeat expansion disorder.

McFarland KN, Ashizawa T.

Genes (Basel). 2012 Jul 30;3(3):481-91. doi: 10.3390/genes3030481. eCollection 2012 Sep. Review.


Visualization of DNA and protein-DNA complexes with atomic force microscopy.

Lyubchenko YL, Gall AA, Shlyakhtenko LS.

Methods Mol Biol. 2014;1117:367-84. doi: 10.1007/978-1-62703-776-1_17.


The balancing act of DNA repeat expansions.

Kim JC, Mirkin SM.

Curr Opin Genet Dev. 2013 Jun;23(3):280-8. doi: 10.1016/j.gde.2013.04.009. Epub 2013 May 29. Review.


Binding of nucleoid-associated protein fis to DNA is regulated by DNA breathing dynamics.

Nowak-Lovato K, Alexandrov LB, Banisadr A, Bauer AL, Bishop AR, Usheva A, Mu F, Hong-Geller E, Rasmussen KØ, Hlavacek WS, Alexandrov BS.

PLoS Comput Biol. 2013;9(1):e1002881. doi: 10.1371/journal.pcbi.1002881. Epub 2013 Jan 17.


Analysis of stress-induced duplex destabilization (SIDD) properties of replication origins, genes and intergenes in the fission yeast, Schizosaccharomyces pombe.

Yadav MP, Padmanabhan S, Tripathi VP, Mishra RK, Dubey DD.

BMC Res Notes. 2012 Nov 19;5:643. doi: 10.1186/1756-0500-5-643.


Mica functionalization for imaging of DNA and protein-DNA complexes with atomic force microscopy.

Shlyakhtenko LS, Gall AA, Lyubchenko YL.

Methods Mol Biol. 2013;931:295-312. doi: 10.1007/978-1-62703-056-4_14.


Theoretical analysis of competing conformational transitions in superhelical DNA.

Zhabinskaya D, Benham CJ.

PLoS Comput Biol. 2012;8(4):e1002484. doi: 10.1371/journal.pcbi.1002484. Epub 2012 Apr 26.


On the sequence-directed nature of human gene mutation: the role of genomic architecture and the local DNA sequence environment in mediating gene mutations underlying human inherited disease.

Cooper DN, Bacolla A, Férec C, Vasquez KM, Kehrer-Sawatzki H, Chen JM.

Hum Mutat. 2011 Oct;32(10):1075-99. doi: 10.1002/humu.21557. Epub 2011 Sep 2. Review.


Superhelical duplex destabilization and the recombination position effect.

Sershen CL, Mell JC, Madden SM, Benham CJ.

PLoS One. 2011;6(6):e20798. doi: 10.1371/journal.pone.0020798. Epub 2011 Jun 9.


DNA dynamics is likely to be a factor in the genomic nucleotide repeats expansions related to diseases.

Alexandrov BS, Valtchinov VI, Alexandrov LB, Gelev V, Dagon Y, Bock J, Kohane IS, Rasmussen KØ, Bishop AR, Usheva A.

PLoS One. 2011;6(5):e19800. doi: 10.1371/journal.pone.0019800. Epub 2011 May 20. Erratum in: PLoS One. 2011;6(6). doi:10.1371/annotation/f68e9b71-cae1-4f9c-9308-a444d3ea753d.


Theoretical analysis of the stress induced B-Z transition in superhelical DNA.

Zhabinskaya D, Benham CJ.

PLoS Comput Biol. 2011 Jan 20;7(1):e1001051. doi: 10.1371/journal.pcbi.1001051.


Expansions, contractions, and fragility of the spinocerebellar ataxia type 10 pentanucleotide repeat in yeast.

Cherng N, Shishkin AA, Schlager LI, Tuck RH, Sloan L, Matera R, Sarkar PS, Ashizawa T, Freudenreich CH, Mirkin SM.

Proc Natl Acad Sci U S A. 2011 Feb 15;108(7):2843-8. doi: 10.1073/pnas.1009409108. Epub 2011 Jan 31.


Replication-dependent instability at (CTG) x (CAG) repeat hairpins in human cells.

Liu G, Chen X, Bissler JJ, Sinden RR, Leffak M.

Nat Chem Biol. 2010 Sep;6(9):652-9. doi: 10.1038/nchembio.416. Epub 2010 Aug 1.


A Z-DNA sequence reduces slipped-strand structure formation in the myotonic dystrophy type 2 (CCTG) x (CAGG) repeat.

Edwards SF, Sirito M, Krahe R, Sinden RR.

Proc Natl Acad Sci U S A. 2009 Mar 3;106(9):3270-5. doi: 10.1073/pnas.0807699106. Epub 2009 Feb 13.


The biological effects of simple tandem repeats: lessons from the repeat expansion diseases.

Usdin K.

Genome Res. 2008 Jul;18(7):1011-9. doi: 10.1101/gr.070409.107. Review.

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