Modeling alternate RNA structures in genomic sequences.

Azadeh Saffarian 1 Mathieu Giraud 2 Hélène Touzet 1, 2
2 BONSAI - Bioinformatics and Sequence Analysis
Université de Lille, Sciences et Technologies, Inria Lille - Nord Europe, CRIStAL - Centre de Recherche en Informatique, Signal et Automatique de Lille, CNRS - Centre National de la Recherche Scientifique
Abstract : We introduce the concept of RNA multistructures, which 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 multistructures within a genomic sequence.
Type de document :
Article dans une revue
Journal of computational biology : a journal of computational molecular cell biology, Mary Ann Liebert 2015, 22 (3), pp.190-204
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https://hal.archives-ouvertes.fr/hal-01228130
Contributeur : Helene Touzet <>
Soumis le : jeudi 12 novembre 2015 - 16:51:50
Dernière modification le : jeudi 7 janvier 2016 - 16:50:17

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  • HAL Id : hal-01228130, version 1
  • PUBMED : 25768235

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Azadeh Saffarian, Mathieu Giraud, Hélène Touzet. Modeling alternate RNA structures in genomic sequences.. Journal of computational biology : a journal of computational molecular cell biology, Mary Ann Liebert 2015, 22 (3), pp.190-204. <hal-01228130>

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