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Nucleic Acids Research Advance Access published online on June 12, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm309
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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.

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RNA Movies 2: sequential animation of RNA secondary structures

Alexander Kaiser1, Jan Krüger2 and Dirk J. Evers3,*

1Faculty of Technology, 2Bielefeld University Bioinformatics Service, Center for Biotechnology and 3High Performance Bio-Computing, Center for Biotechnology, Bielefeld University, 33594 Bielefeld, Germany

*To whom correspondence should be addressed. Tel: +49-521-106 3793; Fax: +49-521-106 6490; Email: dirk.evers{at}cebitec.uni-bielefeld.de

Received January 31, 2007. Revised March 30, 2007. Accepted April 14, 2007.

RNA Movies is a simple, yet powerful visualization tool in likeness to a media player application, which enables to browse sequential paths through RNA secondary structure landscapes. It can be used to visualize structural rearrangement processes of RNA, such as folding pathways and conformational switches, or to browse lists of alternative structure candidates. Besides extending the feature set, retaining and improving usability and availability in the web is the main aim of this new version. RNA Movies now supports the DCSE and RNAStructML input formats besides its own RNM format. Pseudoknots and ‘entangled helices’ can be superimposed on the RNA secondary structure layout. Publication quality output is provided through the Scalable Vector Graphics output format understood by most current drawing programs. The software has been completely re-implemented in Java to enable pure client-side operation as applet and web-start application available at the Bielefeld Bioinformatics Server http://bibiserv.techfak.uni-bielefeld.de/rnamovies


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