Free energy parameters for parameter file conversion. More...
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Free energy parameters for parameter file conversion.
This file contains the free energy parameters used in ViennaRNAPackage 1.8.4. They are summarized in:
D.H.Mathews, J. Sabina, M. ZUker, D.H. Turner "Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure" JMB, 288, pp 911-940, 1999
Enthalpies taken from:
A. Walter, D Turner, J Kim, M Lyttle, P M"uller, D Mathews, M Zuker "Coaxial stckaing of helices enhances binding of oligoribonucleotides.. PNAS, 91, pp 9218-9222, 1994
D.H. Turner, N. Sugimoto, and S.M. Freier. "RNA Structure Prediction", Ann. Rev. Biophys. Biophys. Chem. 17, 167-192, 1988.
John A.Jaeger, Douglas H.Turner, and Michael Zuker. "Improved predictions of secondary structures for RNA", PNAS, 86, 7706-7710, October 1989.
L. He, R. Kierzek, J. SantaLucia, A.E. Walter, D.H. Turner "Nearest-Neughbor Parameters for GU Mismatches...." Biochemistry 1991, 30 11124-11132
A.E. Peritz, R. Kierzek, N, Sugimoto, D.H. Turner "Thermodynamic Study of Internal Loops in Oligoribonucleotides..." Biochemistry 1991, 30, 6428--6435
1.6.1