TBI-Preprint 03-018
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Titel:
Design of Multi-Stable Nucleic Acid Sequences
Author(s):
Ingrid Abfalter,
Christoph Flamm,
Peter F. Stadler
submitted to:
LNCS, (2003)
Abstract:
RNA molecules that can fold into to or
more predefined alternative metastable structures can be designed
rationally. We outline an algorithm for this task that reduces the
problem to vertex coloring the union of all prescribed outerplanar
secondary structure graphs. Starting from an ear decomposition of
this composite graph colorings are produced by a dynamic programming
procedure. Sequences can then be optimized for particular properties
by means of standard optimization heuristics.
Keywords:
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