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Titel:
Exact Folding Dynamics of RNA Secondary Structures
Author(s):
Michael T. Wolfinger,
W. Andreas Svrcek-Seiler
Christoph Flamm,
Ivo L. Hofacker,
Peter F. Stadler
Appeared in:
J.Phys.A: Math.Gen. 37: 4731-4741 (2004)
Abstract:
Barrier trees consisting of local minima and their connecting saddle points
imply a natural coarse-graining for the description of the energy landscape
of RNA secondary structures. Here we show that, based on this approach, it
is possible to predict the folding behavior of RNA molecules by numerical
integration. Comparison with stochastic folding simulations shows
reasonable agreement of the resulting folding dynamics and a drastic
increase in computational efficiency that makes it possible to investigate
the folding dynamics of RNA of at least tRNA size. Our approach is readily
applicable to bistable RNA molecules and promises to facilitate studies on
the dynamic behavior of RNA switches.
Keywords:
RNA Folding, Energy Landscape, Barrier Trees, RNA Switches
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Last modified: 2004-04-14 12:27:14 ivo