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Hindawi, Advances in Bioinformatics, (2012), p. 1-5, 2012

DOI: 10.1155/2012/893048

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BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms

Journal article published in 2012 by Julien Allali, Yves d’Aubenton-Carafa, Cédric Saule, Cédric Chauve, Yves d’Aubenton-Carafa, Alain Denise, Yves D'Aubenton-Carafa, Christine Drevet, Pascal Ferraro, Daniel Gautheret, Claire Herrbach, Antoine de Monte, Fabrice Leclerc ORCID, Aida Ouangraoua, Marie-France Sagot and other authors.
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

The pairwise comparison of RNA secondary structures is a fundamental problem, with direct application in mining databases for annotating putative noncoding RNA candidates in newly sequenced genomes. An increasing number of software tools are available for comparing RNA secondary structures, based on different models (such as ordered trees or forests, arc annotated sequences, and multilevel trees) and computational principles (edit distance, alignment). We describe here the website BRASERO that offers tools for evaluating such software tools on real and synthetic datasets.