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Items: 1 to 20 of 150

1.

Conformational equilibria of bulged sites in duplex DNA studied by EPR spectroscopy.

Smith AL, Cekan P, Brewood GP, Okonogi TM, Alemayehu S, Hustedt EJ, Benight AS, Sigurdsson ST, Robinson BH.

J Phys Chem B. 2009 Mar 5;113(9):2664-75. doi: 10.1021/jp808260b.

2.

Thermodynamic parameters for an expanded nearest-neighbor model for the formation of RNA duplexes with single nucleotide bulges.

Znosko BM, Silvestri SB, Volkman H, Boswell B, Serra MJ.

Biochemistry. 2002 Aug 20;41(33):10406-17.

PMID:
12173927
3.

The contribution of DNA single-stranded order to the thermodynamics of duplex formation.

Vesnaver G, Breslauer KJ.

Proc Natl Acad Sci U S A. 1991 May 1;88(9):3569-73.

4.

Solution structure of a trinucleotide A-T-A bulge loop within a DNA duplex.

Rosen MA, Shapiro L, Patel DJ.

Biochemistry. 1992 Apr 28;31(16):4015-26.

PMID:
1314655
5.

Identification of single-base mismatches in duplex DNA by EPR spectroscopy.

Cekan P, Sigurdsson ST.

J Am Chem Soc. 2009 Dec 23;131(50):18054-6. doi: 10.1021/ja905623k.

PMID:
19928915
6.

Conformation and dynamics of nucleotides in bulges and symmetric internal loops in duplex DNA studied by EPR and fluorescence spectroscopies.

Cekan P, Sigurdsson ST.

Biochem Biophys Res Commun. 2012 Apr 13;420(3):656-61. doi: 10.1016/j.bbrc.2012.03.059. Epub 2012 Mar 17.

PMID:
22450317
8.

The effect of single base-pair mismatches on the duplex stability of d(T-A-T-T-A-A-T-A-T-C-A-A-G-T-T-G) . d(C-A-A-C-T-T-G-A-T-A-T-T-A-A-T-A).

Tibanyenda N, De Bruin SH, Haasnoot CA, van der Marel GA, van Boom JH, Hilbers CW.

Eur J Biochem. 1984 Feb 15;139(1):19-27.

9.

Thermodynamic parameters based on a nearest-neighbor model for DNA sequences with a single-bulge loop.

Tanaka F, Kameda A, Yamamoto M, Ohuchi A.

Biochemistry. 2004 Jun 8;43(22):7143-50.

PMID:
15170351
10.

Differential hydration of dA.dT base pairing and dA and dT bulges in deoxyoligonucleotides.

Zieba K, Chu TM, Kupke DW, Marky LA.

Biochemistry. 1991 Aug 13;30(32):8018-26.

PMID:
1868075
11.

Overall and internal dynamics of DNA as monitored by five-atom-tethered spin labels.

Keyes RS, Bobst EV, Cao YY, Bobst AM.

Biophys J. 1997 Jan;72(1):282-90.

12.

Energetic signatures of single base bulges: thermodynamic consequences and biological implications.

Minetti CA, Remeta DP, Dickstein R, Breslauer KJ.

Nucleic Acids Res. 2010 Jan;38(1):97-116. doi: 10.1093/nar/gkp1036. Epub 2009 Nov 27.

13.
14.

Effects for the incorporation of five-atom thioacetamido nucleic acid (TANA) backbone on hybridization thermodynamics and kinetics of DNA duplexes.

Kaur H, Arora A, Gogoi K, Solanke P, Gunjal AD, Kumar VA, Maiti S.

J Phys Chem B. 2009 Mar 5;113(9):2944-51. doi: 10.1021/jp808747g.

PMID:
19708120
15.

Melting studies of short DNA hairpins: influence of loop sequence and adjoining base pair identity on hairpin thermodynamic stability.

Vallone PM, Paner TM, Hilario J, Lane MJ, Faldasz BD, Benight AS.

Biopolymers. 1999 Oct 5;50(4):425-42.

PMID:
10423551
16.

Solution structure of a wedge-shaped synthetic molecule at a two-base bulge site in DNA.

Hwang GS, Jones GB, Goldberg IH.

Biochemistry. 2003 Jul 22;42(28):8472-83.

PMID:
12859193
17.

Effects of bulge composition and flanking sequence on the kinking of DNA by bulged bases.

Wang YH, Griffith J.

Biochemistry. 1991 Feb 5;30(5):1358-63.

PMID:
1991115
18.

Non-nearest-neighbor dependence of the stability for RNA bulge loops based on the complete set of group I single-nucleotide bulge loops.

Blose JM, Manni ML, Klapec KA, Stranger-Jones Y, Zyra AC, Sim V, Griffith CA, Long JD, Serra MJ.

Biochemistry. 2007 Dec 25;46(51):15123-35. Epub 2007 Nov 30.

19.

Thermodynamics of DNA duplexes with adjacent G.A mismatches.

Li Y, Zon G, Wilson WD.

Biochemistry. 1991 Jul 30;30(30):7566-72.

PMID:
1854755

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