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Bioinformatics Advance Access originally published online on May 19, 2005
Bioinformatics 2005 21(15):3320-3321; doi:10.1093/bioinformatics/bti504
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure

Fabrice Jossinet * and Eric Westhof

Institut de Biologie Moléculaire et Cellulaire du CNRS, UPR9002, Université Louis Pasteur F-67084 Strasbourg, France

*To whom correspondence should be addressed.

Summary: Efficient RNA sequence manipulations (such as multiple alignments) need to be constrained by rules of RNA structure folding. The structural knowledge has increased dramatically in the last years with the accumulation of several large RNA structures similar to those of the bacterial ribosome subunits. However, no tool in the RNA community provides an easy way to link and integrate progress made at the sequence level using the available three-dimensional information. Sequence to Structure (S2S) proposes a framework in which an user can easily display, manipulate and interconnect heterogeneous RNA data, such as multiple sequence alignments, secondary and tertiary structures. S2S has been implemented using the Java language and has been developed and tested under UNIX systems, such as Linux and MacOSX.

Availability: S2S is available at http://bioinformatics.org/S2S/

Contact: f.jossinet{at}ibmc.u-strasbg.fr

Received on March 14, 2005; revised on May 17, 2005; accepted on May 17, 2005

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