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BIOINFORMATICS
2006

Memory efficient folding algorithms for circular RNA secondary structures

13 years 11 months ago
Memory efficient folding algorithms for circular RNA secondary structures
A small class of RNA molecules, in particular the tiny genomes of viroids, are circular. Yet most structure prediction algorithms handle only linear RNAs. The most straightforward approach is to compute circular structures from "internal" and "external" substructures separated by a base pair. This is incompatible, however, with the memory-saving approach of the Vienna RNA Package which builds a linear RNA structure from shorter (internal) structures only. Here we describe how circular secondary structures can be obtained without additional memory requirements as a kind of "post-processing" of the linear structures.
Ivo L. Hofacker, Peter F. Stadler
Added 10 Dec 2010
Updated 10 Dec 2010
Type Journal
Year 2006
Where BIOINFORMATICS
Authors Ivo L. Hofacker, Peter F. Stadler
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