Searching for alternate RNA structures in genomic sequences

Azadeh Saffarian 1, 2 Mathieu Giraud 1 Hélène Touzet 1, 2
2 BONSAI - Bioinformatics and Sequence Analysis
LIFL - Laboratoire d'Informatique Fondamentale de Lille, Inria Lille - Nord Europe
Abstract : We introduce the concept of RNA multi-structures, that is a formal grammar based framework specifically designed to model a set of alternate RNA secondary structures. Such alternate structures can either be a set of suboptimal foldings, or distinct stable folding states, or variants within an RNA family. We provide several such examples and propose an efficient algorithm to search for RNA multi-structures within a genomic sequence.
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Communication dans un congrès
Computational Methods for Structural RNAs, CMSR'14, Sep 2014, Strasbourg, France. 1, pp.13-24, 2014, 1st workshop on Computational Methods for Structural RNAs. <10.15455/CMSR.2014.0002>
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Contributeur : Helene Touzet <>
Soumis le : mercredi 19 novembre 2014 - 13:39:39
Dernière modification le : vendredi 8 janvier 2016 - 01:06:54
Document(s) archivé(s) le : vendredi 20 février 2015 - 10:10:53

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CMSR14-Article-Touzet.pdf
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Azadeh Saffarian, Mathieu Giraud, Hélène Touzet. Searching for alternate RNA structures in genomic sequences. Computational Methods for Structural RNAs, CMSR'14, Sep 2014, Strasbourg, France. 1, pp.13-24, 2014, 1st workshop on Computational Methods for Structural RNAs. <10.15455/CMSR.2014.0002>. <hal-01084319>

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