RNApathfinder is a web server to compute near-optimal folding pathways between two given secondary structures for a given RNA sequence. Since this problem is known to be NP-complete, our main algorithm, RNAtabupath uses the TABU local search heuristic. The web server includes both downloadable source code for several algorithms, as well as a web engine to compute pathways. Intended applications concern folding pathways for RNA conformational switches.
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I. Dotú, W.A. Lorenz, P. Van Hentenryck, P. Clote.
Computing folding pathways between RNA secondary structures.
Nucleic Acids Res. 2010 Mar 1;38(5):1711-22.