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      A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

      Proceedings of the National Academy of Sciences

      Proceedings of the National Academy of Sciences

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          Most cited references 35

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          The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides.

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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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              Improved estimation of secondary structure in ribonucleic acids.

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                Author and article information

                Journal
                Proceedings of the National Academy of Sciences
                Proceedings of the National Academy of Sciences
                Proceedings of the National Academy of Sciences
                0027-8424
                1091-6490
                February 17 1998
                February 17 1998
                : 95
                : 4
                : 1460-1465
                Article
                10.1073/pnas.95.4.1460
                © 1998
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