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      DNA terminal base pairs have weaker hydrogen bonds especially for AT under low salt concentration

      1 , 1 , 1

      The Journal of Chemical Physics

      AIP Publishing

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          Most cited references 41

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          Statistical mechanics of a nonlinear model for DNA denaturation

           M. Peyrard,  A. Bishop (1989)
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            A standard reference frame for the description of nucleic acid base-pair geometry.

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              Improved nearest-neighbor parameters for predicting DNA duplex stability.

              Thermodynamic data were determined from UV absorbance vs temperature profiles of 23 oligonucleotides. These data were combined with data from the literature for 21 sequences to derive improved parameters for the 10 Watson-Crick nearest neighbors. The observed trend in nearest-neighbor stabilities at 37 degrees C is GC > CG > GG > GA approximately GT approximately CA > CT > AA > AT > TA (where only the top strand is shown for each nearest neighbor). This trend suggests that both sequence and base composition are important determinants of DNA duplex stability. On average, the improved parameters predict deltaG degrees(37), deltaH degrees, deltaS degrees, and T(m) within 4%, 7%, 8%, and 2 degrees C, respectively. The parameters are optimized for the prediction of oligonucleotides dissolved in 1 M NaC1.
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                Author and article information

                Journal
                The Journal of Chemical Physics
                The Journal of Chemical Physics
                AIP Publishing
                0021-9606
                1089-7690
                November 07 2015
                November 07 2015
                : 143
                : 17
                : 175101
                Affiliations
                [1 ]Departamento de Física, Universidade Federal de Minas Gerais, 31270-901 Belo Horizonte-MG, Brazil
                Article
                10.1063/1.4934783
                d2833664-fcce-4259-9b2b-64e503b9a958
                © 2015
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