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Open Access Highly Accessed Software

LeARN: a platform for detecting, clustering and annotating non-coding RNAs

Céline Noirot12, Christine Gaspin2, Thomas Schiex2 and Jérôme Gouzy1*

Author Affiliations

1 Laboratoire Interactions Plantes Micro-organismes UMR441/2594, INRA/CNRS, F-31320 Castanet Tolosan, France

2 Unité de Biométrie et d'Intelligence Artificielle UR875, INRA, F-31320 Castanet Tolosan, France

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BMC Bioinformatics 2008, 9:21  doi:10.1186/1471-2105-9-21

Published: 14 January 2008

Abstract

Background

In the last decade, sequencing projects have led to the development of a number of annotation systems dedicated to the structural and functional annotation of protein-coding genes. These annotation systems manage the annotation of the non-protein coding genes (ncRNAs) in a very crude way, allowing neither the edition of the secondary structures nor the clustering of ncRNA genes into families which are crucial for appropriate annotation of these molecules.

Results

LeARN is a flexible software package which handles the complete process of ncRNA annotation by integrating the layers of automatic detection and human curation.

Conclusion

This software provides the infrastructure to deal properly with ncRNAs in the framework of any annotation project. It fills the gap between existing prediction software, that detect independent ncRNA occurrences, and public ncRNA repositories, that do not offer the flexibility and interactivity required for annotation projects. The software is freely available from the download section of the website http://bioinfo.genopole-toulouse.prd.fr/LeARN webcite