References

D.H. Mathews, M. D. Disney, J.L. Childs, S.J. Schroeder, M. Zuker, D.H. Turner (2004)
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure, Proc Natl Acad Sci U S A, 101(19):7287-92

  1. D.H. Mathews, J. Sabina, M. Zuker and H. Turner (1999)
    Expanded sequence dependence of thermodynamic parameters provides robust prediction of RNA secondary structure, JMB, 288: 911-940
  2. Zuker and P. Stiegler (1981)
    Optimal computer folding of large RNA sequences using thermodynamic and auxiliary information, Nucl Acid Res 9: 133-148
  3. D.A. Dimitrov, M.Zuker(2004)
    Prediction of hybridization and melting for double stranded nucleic acids, Biophysical J. 87: 215-226,
  4. J.S. McCaskill (1990)
    The equilibrium partition function and base pair binding probabilities for RNA secondary structures, Biopolymers 29: 1105-1119
  5. D.H. Turner, N. Sugimoto and S.M. Freier (1988)
    RNA structure prediction, Ann Rev Biophys Biophys Chem 17: 167-192
  6. J.A. Jaeger, D.H. Turner and M. Zuker (1989)
    Improved predictions of secondary structures for RNA, Proc. Natl. Acad. Sci. 86: 7706-7710
  7. L. He, R. Kierzek, J. SantaLucia, A.E. Walter and D.H. Turner (1991)
    Nearest-Neighbor Parameters For GU Mismatches, Biochemistry 30: 11124-11132
  8. A.E. Peritz, R. Kierzek, N, Sugimoto, D.H. Turner (1991)
    Thermodynamic Study of Internal Loops in Oligoribonucleotides ... , Biochemistry 30: 6428--6435
  9. A. Walter, D. Turner, J. Kim, M. Lyttle, P. Müller, D. Mathews and M. Zuker (1994)
    Coaxial stacking of helices enhances binding of Oligoribonucleotides.., Proc. Natl. Acad. Sci. 91: 9218-9222
  10. B.A. Shapiro, (1988)
    An algorithm for comparing multiple RNA secondary structures, CABIOS 4, 381-393
  11. B.A. Shapiro and K. Zhang (1990)
    Comparing multiple RNA secondary structures using tree comparison, CABIOS 6, 309-318
  12. R. Bruccoleri and G. Heinrich (1988)
    An improved algorithm for nucleic acid secondary structure display, CABIOS 4, 167-173
  13. W. Fontana , D.A.M. Konings, P.F. Stadler, P. Schuster (1993)
    Statistics of RNA secondary structures, Biopolymers 33, 1389-1404
  14. W. Fontana, P.F. Stadler, E.G. Bornberg-Bauer, T. Griesmacher, I.L. Hofacker, M. Tacker, P. Tarazona, E.D. Weinberger, P. Schuster (1993)
    RNA folding and combinatory landscapes, Phys. Rev. E 47: 2083-2099
  15. I.L. Hofacker, W. Fontana, P.F. Stadler, S. Bonhoeffer, M. Tacker, P. Schuster (1994) Fast Folding and Comparison of RNA Secondary Structures. Monatshefte f. Chemie 125: 167-188
  16. I.L. Hofacker (1994) The Rules of the Evolutionary Game for RNA: A Statistical Characterization of the Sequence to Structure Mapping in RNA. PhD Thesis, University of Vienna.
  17. I.L. Hofacker, M. Fekete, P.F. Stadler (2002). Secondary Structure Prediction for Aligned RNA Sequences. J. Mol. Biol. 319:1059-1066
  18. D. Adams (1979)
    The hitchhiker's guide to the galaxy, Pan Books, London

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