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Nucleic Acids Research Advance Access published online on April 22, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm218
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Web Server Paper

INFO-RNA—a server for fast inverse RNA folding satisfying sequence constraints

Anke Busch* and Rolf Backofen

Albert-Ludwigs-University Freiburg, Institute of Computer Science, Bioinformatics Group, Georges-Koehler-Allee 106, 79110 Freiburg, Germany

*To whom correspondence should be addressed. Tel: +49 761 2038253; Fax: +49 761 2037462; Email: abusch{at}informatik.uni-freiburg.de

Received January 29, 2007. Revised March 16, 2007. Accepted March 28, 2007.

INFO-RNA is a new web server for designing RNA sequences that fold into a user given secondary structure. Furthermore, constraints on the sequence can be specified, e.g. one can restrict sequence positions to a fixed nucleotide or to a set of nucleotides. Moreover, the user can allow violations of the constraints at some positions, which can be advantageous in complicated cases.

The INFO-RNA web server allows biologists to design RNA sequences in an automatic manner. It is clearly and intuitively arranged and easy to use. The procedure is fast, as most applications are completed within seconds and it proceeds better and faster than other existing tools. The INFO-RNA web server is freely available at http://www.bioinf.uni-freiburg.de/Software/INFO-RNA/


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