RNAbrowse: RNA-Seq de novo assembly results browser.

Jérôme J. Mariette (1, 2) , Céline Noirot (1, 2) , Ibouniyamine Nabihoudine (1, 2) , Philippe Bardou (3, 4) , Claire Hoede (1, 2) , Anis Djari (1, 4) , Cédric Cabau (3, 4) , Christophe C. Klopp (1, 2, 4)

1 MIAT INRA - Unité de Mathématiques et Informatique Appliquées de Toulouse
2 Plateforme Bio-Informatique - Génotoul
3 GenPhySE - Génétique Physiologie et Systèmes d'Elevage
4 SIGENAE - Système d'Information des GENomes des Animaux d'Elevage

Transcriptome analysis based on a de novo assembly of next generation RNA sequences is now performed routinely in many laboratories. The generated results, including contig sequences, quantification figures, functional annotations and variation discovery outputs are usually bulky and quite diverse. This article presents a user oriented storage and visualisation environment permitting to explore the data in a top-down manner, going from general graphical views to all possible details. The software package is based on biomart, easy to install and populate with local data. The software package is available under the GNU General Public License (GPL) at http://bioinfo.genotoul.fr/RNAbrowse.

Domaines: Mathématiques [math]; Informatique [cs]; Sciences du Vivant [q-bio]

Jérôme J. Mariette, Céline Noirot, Ibouniyamine Nabihoudine, Philippe Bardou, Claire Hoede, et al.. RNAbrowse: RNA-Seq de novo assembly results browser.. PLoS ONE, 2014, 9 (5), 7 p. ⟨10.1371/journal.pone.0096821⟩. ⟨hal-02636622⟩