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Items: 1 to 50 of 101

1.

Novel computational study on π-stacking to understand mechanistic interactions of Tryptanthrin analogues with DNA.

Terryn RJ 3rd, German HW, Kummerer TM, Sinden RR, Baum JC, Novak MJ.

Toxicol Mech Methods. 2014 Jan;24(1):73-9. doi: 10.3109/15376516.2013.859194. Epub 2013 Nov 21.

PMID:
24156546
2.

The helix turns at 60: writhing free in chromosomes.

Sinden RR.

Nat Struct Mol Biol. 2013 Mar;20(3):251-3. doi: 10.1038/nsmb.2533. No abstract available.

PMID:
23463308
3.

Replication fork stalling and checkpoint activation by a PKD1 locus mirror repeat polypurine-polypyrimidine (Pu-Py) tract.

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

J Biol Chem. 2012 Sep 28;287(40):33412-23. Epub 2012 Aug 6.

4.

On an unbiased and consistent estimator for mutation rates.

Niccum BA, Poteau R, Hamman GE, Varada JC, Dshalalow JH, Sinden RR.

J Theor Biol. 2012 May 7;300:360-7. doi: 10.1016/j.jtbi.2012.01.029. Epub 2012 Feb 8.

PMID:
22326895
5.

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.

6.

Antimicrobial activity of tryptanthrins in Escherichia coli.

Bandekar PP, Roopnarine KA, Parekh VJ, Mitchell TR, Novak MJ, Sinden RR.

J Med Chem. 2010 May 13;53(9):3558-65. doi: 10.1021/jm901847f.

PMID:
20373766
7.

Genetic instabilities of (CCTG).(CAGG) and (ATTCT).(AGAAT) disease-associated repeats reveal multiple pathways for repeat deletion.

Edwards SF, Hashem VI, Klysik EA, Sinden RR.

Mol Carcinog. 2009 Apr;48(4):336-49. doi: 10.1002/mc.20534.

PMID:
19306311
8.

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.

10.

Slipped strand DNA structures.

Sinden RR, Pytlos-Sinden MJ, Potaman VN.

Front Biosci. 2007 Sep 1;12:4788-99. Review.

PMID:
17569609
11.

Target DNA structure plays a critical role in RAG transposition.

Posey JE, Pytlos MJ, Sinden RR, Roth DB.

PLoS Biol. 2006 Nov;4(11):e350.

12.

(CAG)*(CTG) repeats associated with neurodegenerative diseases are stable in the Escherichia coli chromosome.

Kim SH, Pytlos MJ, Rosche WA, Sinden RR.

J Biol Chem. 2006 Sep 22;281(38):27950-5. Epub 2006 Jul 27.

13.

Replication restart: a pathway for (CTG).(CAG) repeat deletion in Escherichia coli.

Kim SH, Pytlos MJ, Sinden RR.

Mutat Res. 2006 Mar 20;595(1-2):5-22.

PMID:
16472829
14.

DNA strand arrangement within the SfiI-DNA complex: atomic force microscopy analysis.

Lushnikov AY, Potaman VN, Oussatcheva EA, Sinden RR, Lyubchenko YL.

Biochemistry. 2006 Jan 10;45(1):152-8.

15.

Molecular biology: DNA twists and flips.

Sinden RR.

Nature. 2005 Oct 20;437(7062):1097-8. No abstract available.

PMID:
16237426
16.

Generation of long tracts of disease-associated DNA repeats.

Kim SH, Cai L, Pytlos MJ, Edwards SF, Sinden RR.

Biotechniques. 2005 Feb;38(2):247-53.

18.

Chemotherapeutic deletion of CTG repeats in lymphoblast cells from DM1 patients.

Hashem VI, Pytlos MJ, Klysik EA, Tsuji K, Khajavi M, Ashizawa T, Sinden RR.

Nucleic Acids Res. 2004 Dec 1;32(21):6334-46. Print 2004. Erratum in: Nucleic Acids Res. 2004 Dec;32(22):6717. Khajav, Merhdad [corrected to Khajavi, Mehrdad].

19.

Genetic recombination destabilizes (CTG)n.(CAG)n repeats in E. coli.

Hashem VI, Rosche WA, Sinden RR.

Mutat Res. 2004 Oct 4;554(1-2):95-109.

PMID:
15450408
20.

Interaction of the Zalpha domain of human ADAR1 with a negatively supercoiled plasmid visualized by atomic force microscopy.

Lushnikov AY, Brown BA 2nd, Oussatcheva EA, Potaman VN, Sinden RR, Lyubchenko YL.

Nucleic Acids Res. 2004 Sep 1;32(15):4704-12. Print 2004.

21.

Supercoiling-induced DNA bending.

Pavlicek JW, Oussatcheva EA, Sinden RR, Potaman VN, Sankey OF, Lyubchenko YL.

Biochemistry. 2004 Aug 24;43(33):10664-8.

PMID:
15311927
22.

Influence of global DNA topology on cruciform formation in supercoiled DNA.

Oussatcheva EA, Pavlicek J, Sankey OF, Sinden RR, Lyubchenko YL, Potaman VN.

J Mol Biol. 2004 May 7;338(4):735-43.

PMID:
15099741
23.

Length-dependent structure formation in Friedreich ataxia (GAA)n*(TTC)n repeats at neutral pH.

Potaman VN, Oussatcheva EA, Lyubchenko YL, Shlyakhtenko LS, Bidichandani SI, Ashizawa T, Sinden RR.

Nucleic Acids Res. 2004 Feb 20;32(3):1224-31. Print 2004.

24.

Strand misalignments lead to quasipalindrome correction.

van Noort V, Worning P, Ussery DW, Rosche WA, Sinden RR.

Trends Genet. 2003 Jul;19(7):365-9. No abstract available.

PMID:
12850440
25.

Intersegmental interactions in supercoiled DNA: atomic force microscope study.

Shlyakhtenko LS, Miloseska L, Potaman VN, Sinden RR, Lyubchenko YL.

Ultramicroscopy. 2003 Oct-Nov;97(1-4):263-70.

PMID:
12801679
26.

Unpaired structures in SCA10 (ATTCT)n.(AGAAT)n repeats.

Potaman VN, Bissler JJ, Hashem VI, Oussatcheva EA, Lu L, Shlyakhtenko LS, Lyubchenko YL, Matsuura T, Ashizawa T, Leffak M, Benham CJ, Sinden RR.

J Mol Biol. 2003 Feb 28;326(4):1095-111.

PMID:
12589756
27.

Site-specific labeling of supercoiled DNA at the A+T rich sequences.

Potaman VN, Lushnikov AY, Sinden RR, Lyubchenko YL.

Biochemistry. 2002 Nov 5;41(44):13198-206.

PMID:
12403621
28.

Chemotherapeutically induced deletion of expanded triplet repeats.

Hashem VI, Sinden RR.

Mutat Res. 2002 Oct 31;508(1-2):107-19.

PMID:
12379466
29.

Instability of repeated DNAs during transformation in Escherichia coli.

Hashem VI, Klysik EA, Rosche WA, Sinden RR.

Mutat Res. 2002 May 22;502(1-2):39-46.

PMID:
11996970
30.

Genetic assays for measuring rates of (CAG).(CTG) repeat instability in Escherichia coli.

Hashem VI, Rosche WA, Sinden RR.

Mutat Res. 2002 May 22;502(1-2):25-37.

PMID:
11996969
31.

Triplet repeat DNA structures and human genetic disease: dynamic mutations from dynamic DNA.

Sinden RR, Potaman VN, Oussatcheva EA, Pearson CE, Lyubchenko YL, Shlyakhtenko LS.

J Biosci. 2002 Feb;27(1 Suppl 1):53-65.

32.

Targeted transposition by the V(D)J recombinase.

Lee GS, Neiditch MB, Sinden RR, Roth DB.

Mol Cell Biol. 2002 Apr;22(7):2068-77.

33.

The structure of intramolecular triplex DNA: atomic force microscopy study.

Tiner WJ Sr, Potaman VN, Sinden RR, Lyubchenko YL.

J Mol Biol. 2001 Nov 30;314(3):353-7.

PMID:
11846549
34.

Neurodegenerative diseases. Origins of instability.

Sinden RR.

Nature. 2001 Jun 14;411(6839):757-8. No abstract available.

PMID:
11459042
35.

Involvement of the nucleotide excision repair protein UvrA in instability of CAG*CTG repeat sequences in Escherichia coli.

Oussatcheva EA, Hashem VI, Zou Y, Sinden RR, Potaman VN.

J Biol Chem. 2001 Aug 17;276(33):30878-84. Epub 2001 Jun 18.

36.

Unexpected formation of parallel duplex in GAA and TTC trinucleotide repeats of Friedreich's ataxia.

LeProust EM, Pearson CE, Sinden RR, Gao X.

J Mol Biol. 2000 Oct 6;302(5):1063-80. Erratum in: J Mol Biol 2001 Jan 9;306(1):133. Pearso, CE [corrected to Pearson, CE].

PMID:
11183775
37.

Structure and dynamics of three-way DNA junctions: atomic force microscopy studies.

Shlyakhtenko LS, Potaman VN, Sinden RR, Gall AA, Lyubchenko YL.

Nucleic Acids Res. 2000 Sep 15;28(18):3472-7.

38.

A cruciform structural transition provides a molecular switch for chromosome structure and dynamics.

Shlyakhtenko LS, Hsieh P, Grigoriev M, Potaman VN, Sinden RR, Lyubchenko YL.

J Mol Biol. 2000 Mar 10;296(5):1169-73.

PMID:
10698623
39.

DNA polymerase III proofreading mutants enhance the expansion and deletion of triplet repeat sequences in Escherichia coli.

Iyer RR, Pluciennik A, Rosche WA, Sinden RR, Wells RD.

J Biol Chem. 2000 Jan 21;275(3):2174-84.

40.

Transcriptional state of the mouse mammary tumor virus promoter can affect topological domain size in vivo.

Kramer PR, Fragoso G, Pennie W, Htun H, Hager GL, Sinden RR.

J Biol Chem. 1999 Oct 1;274(40):28590-7.

41.

Structure of branched DNA molecules: gel retardation and atomic force microscopy studies.

Oussatcheva EA, Shlyakhtenko LS, Glass R, Sinden RR, Lyubchenko YL, Potaman VN.

J Mol Biol. 1999 Sep 10;292(1):75-86.

PMID:
10493858
42.

DNA-directed mutations. Leading and lagging strand specificity.

Sinden RR, Hashem VI, Rosche WA.

Ann N Y Acad Sci. 1999 May 18;870:173-89. Review.

PMID:
10415482
43.

DNA structural transitions within the PKD1 gene.

Blaszak RT, Potaman V, Sinden RR, Bissler JJ.

Nucleic Acids Res. 1999 Jul 1;27(13):2610-7.

44.

Measurement of localized DNA supercoiling and topological domain size in eukaryotic cells.

Kramer PR, Bat O, Sinden RR.

Methods Enzymol. 1999;304:639-50. No abstract available.

PMID:
10372387
45.

Psoralen cross-linking as probe of torsional tension and topological domain size in vivo.

Sinden RR, Bat O, Kramer PR.

Methods. 1999 Feb;17(2):112-24.

PMID:
10075890
46.

Biological implications of the DNA structures associated with disease-causing triplet repeats.

Sinden RR.

Am J Hum Genet. 1999 Feb;64(2):346-53. Review. No abstract available.

48.

Template end-to-end transposition by RNA polymerase II.

Izban MG, Parsons MA, Sinden RR.

J Biol Chem. 1998 Oct 9;273(41):27009-16.

49.
50.

Stabilization of intramolecular triple/single-strand structure by cationic peptides.

Potaman VN, Sinden RR.

Biochemistry. 1998 Sep 15;37(37):12952-61.

PMID:
9737875

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