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Items: 1 to 20 of 99

1.

The structure of DNA overstretched from the 5'5' ends differs from the structure of DNA overstretched from the 3'3' ends.

Danilowicz C, Limouse C, Hatch K, Conover A, Coljee VW, Kleckner N, Prentiss M.

Proc Natl Acad Sci U S A. 2009 Aug 11;106(32):13196-201. doi: 10.1073/pnas.0904729106. Epub 2009 Jul 28.

2.

DNA overstretching in the presence of glyoxal: structural evidence of force-induced DNA melting.

Shokri L, McCauley MJ, Rouzina I, Williams MC.

Biophys J. 2008 Aug;95(3):1248-55. doi: 10.1529/biophysj.108.132688. Epub 2008 Apr 18.

3.

Unraveling the structure of DNA during overstretching by using multicolor, single-molecule fluorescence imaging.

van Mameren J, Gross P, Farge G, Hooijman P, Modesti M, Falkenberg M, Wuite GJ, Peterman EJ.

Proc Natl Acad Sci U S A. 2009 Oct 27;106(43):18231-6. doi: 10.1073/pnas.0904322106. Epub 2009 Oct 19.

4.

Overstretching of a 30 bp DNA duplex studied with steered molecular dynamics simulation: effects of structural defects on structure and force-extension relation.

Li H, Gisler T.

Eur Phys J E Soft Matter. 2009 Nov;30(3):325-32. doi: 10.1140/epje/i2009-10524-5. Epub 2009 Oct 22.

PMID:
19847465
5.

Mechanical stability of single DNA molecules.

Clausen-Schaumann H, Rief M, Tolksdorf C, Gaub HE.

Biophys J. 2000 Apr;78(4):1997-2007.

6.

Study of force induced melting of dsDNA as a function of length and conformation.

Danilowicz C, Hatch K, Conover A, Ducas T, Gunaratne R, Coljee V, Prentiss M.

J Phys Condens Matter. 2010 Oct 20;22(41):414106. doi: 10.1088/0953-8984/22/41/414106. Epub 2010 Sep 30.

7.

B-S transition in short oligonucleotides.

Morfill J, Kühner F, Blank K, Lugmaier RA, Sedlmair J, Gaub HE.

Biophys J. 2007 Oct 1;93(7):2400-9. Epub 2007 Jun 8.

8.

Revealing the competition between peeled ssDNA, melting bubbles, and S-DNA during DNA overstretching by single-molecule calorimetry.

Zhang X, Chen H, Le S, Rouzina I, Doyle PS, Yan J.

Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):3865-70. doi: 10.1073/pnas.1213740110. Epub 2013 Feb 19.

9.
10.

Overstretching DNA at 65 pN does not require peeling from free ends or nicks.

Paik DH, Perkins TT.

J Am Chem Soc. 2011 Mar 16;133(10):3219-21. doi: 10.1021/ja108952v. Epub 2011 Jan 5.

PMID:
21207940
11.

Stretching chimeric DNA: a test for the putative S-form.

Whitelam S, Pronk S, Geissler PL.

J Chem Phys. 2008 Nov 28;129(20):205101. doi: 10.1063/1.3009266.

PMID:
19045879
12.

Tension induces a base-paired overstretched DNA conformation.

Bosaeus N, El-Sagheer AH, Brown T, Smith SB, Akerman B, Bustamante C, Nordén B.

Proc Natl Acad Sci U S A. 2012 Sep 18;109(38):15179-84. Epub 2012 Sep 4.

13.

Coarse-grained simulations of DNA overstretching.

Romano F, Chakraborty D, Doye JP, Ouldridge TE, Louis AA.

J Chem Phys. 2013 Feb 28;138(8):085101. doi: 10.1063/1.4792252.

PMID:
23464177
14.

The probability analysis of opening of DNA.

Srivastava S, Singh N.

J Chem Phys. 2011 Mar 21;134(11):115102. doi: 10.1063/1.3563633. Erratum in: J Chem Phys. 2011 May 21;134(19):199901.

PMID:
21428666
15.

Transition dynamics and selection of the distinct S-DNA and strand unpeeling modes of double helix overstretching.

Fu H, Chen H, Zhang X, Qu Y, Marko JF, Yan J.

Nucleic Acids Res. 2011 Apr;39(8):3473-81. doi: 10.1093/nar/gkq1278. Epub 2010 Dec 21.

16.

Effect of genome sequence on the force-induced unzipping of a DNA molecule.

Singh N, Singh Y.

Eur Phys J E Soft Matter. 2006 Feb;19(2):233-8. Epub 2006 Feb 28.

PMID:
16505948
17.

Sequence-dependent mechanics of single DNA molecules.

Rief M, Clausen-Schaumann H, Gaub HE.

Nat Struct Biol. 1999 Apr;6(4):346-9.

PMID:
10201403
18.

Demonstration that the shear force required to separate short double-stranded DNA does not increase significantly with sequence length for sequences longer than 25 base pairs.

Hatch K, Danilowicz C, Coljee V, Prentiss M.

Phys Rev E Stat Nonlin Soft Matter Phys. 2008 Jul;78(1 Pt 1):011920. Epub 2008 Jul 29.

PMID:
18763995
19.

Revealing the competition between peeled ssDNA, melting bubbles, and S-DNA during DNA overstretching using fluorescence microscopy.

King GA, Gross P, Bockelmann U, Modesti M, Wuite GJ, Peterman EJ.

Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):3859-64. doi: 10.1073/pnas.1213676110. Epub 2013 Feb 19.

20.

Interconversion between three overstretched DNA structures.

Zhang X, Qu Y, Chen H, Rouzina I, Zhang S, Doyle PS, Yan J.

J Am Chem Soc. 2014 Nov 12;136(45):16073-80. doi: 10.1021/ja5090805. Epub 2014 Nov 4.

PMID:
25337990
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