MD and NMR Analyses of Choline and TMA Binding to Duplex DNA: On the Origins of Aberrant Sequence-Dependent Stability by Alkyl Cations in Aqueous and Water-Free Solvents

2014 ◽  
Vol 136 (8) ◽  
pp. 3075-3086 ◽  
Author(s):  
Guillem Portella ◽  
Markus W. Germann ◽  
Nicholas V. Hud ◽  
Modesto Orozco
Keyword(s):  
Duplex Dna ◽  
Sequence Dependent ◽  
Alkyl Cations

Studies of DNA dumbbells VII: Evaluation of the next-nearest-neighbor sequence-dependent interactions in duplex DNA

Biopolymers ◽  
1999 ◽  
Vol 52 (1) ◽  
pp. 29-56 ◽  
Author(s):  
Richard Owczarzy ◽  
Peter M. Vallone ◽  
Robert F. Goldstein ◽  
Albert S. Benight
Keyword(s):  
Nearest Neighbor ◽  
Duplex Dna ◽  
Sequence Dependent

Predicting sequence-dependent melting stability of short duplex DNA oligomers

Biopolymers ◽  
1997 ◽  
Vol 44 (3) ◽  
pp. 217-239 ◽  
Author(s):  
Richard Owczarzy ◽  
Peter M. Vallone ◽  
Frank J. Gallo ◽  
Teodoro M. Paner ◽  
Michael J. Lane ◽  
...  
Keyword(s):  
Duplex Dna ◽  
Dna Oligomers ◽  
Sequence Dependent

scholarly journals Abasic Sites in Duplex DNA: Molecular Modeling of Sequence-Dependent Effects on Conformation

1999 ◽  
Vol 77 (6) ◽  
pp. 3218-3226 ◽  
Author(s):  
Leila Ayadi ◽  
Christian Coulombeau ◽  
Richard Lavery
Keyword(s):  
Molecular Modeling ◽  
Duplex Dna ◽  
Abasic Sites ◽  
Sequence Dependent

Sequence-Dependent Solvation Dynamics of Minor-Groove Bound Ligand Inside Duplex-DNA

2015 ◽  
Vol 119 (34) ◽  
pp. 11019-11029 ◽  
Author(s):  
Sachin Dev Verma ◽  
Nibedita Pal ◽  
Moirangthem Kiran Singh ◽  
Sobhan Sen
Keyword(s):  
Minor Groove ◽  
Solvation Dynamics ◽  
Duplex Dna ◽  
Sequence Dependent

Calculating sequence-dependent melting stability of duplex DNA oligomers and multiplex sequence analysis by graphs

2001 ◽  
pp. 165-192 ◽  
Author(s):  
Albert S Benight ◽  
Petr Pančoška ◽  
Richard Owczarzy ◽  
Peter M Vallone ◽  
Jaroslav Nešetřil ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Duplex Dna ◽  
Dna Oligomers ◽  
Sequence Dependent

Stacking heterogeneity: A model for the sequence dependent melting cooperativity of duplex DNA

2007 ◽  
Vol 126 (16) ◽  
pp. 165101 ◽  
Author(s):  
A. V. Grigoryan ◽  
E. Sh. Mamasakhlisov ◽  
T. Yu. Buryakina ◽  
A. V. Tsarukyan ◽  
A. S. Benight ◽  
...  
Keyword(s):  
Duplex Dna ◽  
Sequence Dependent
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