SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data. - CRISTAL-BONSAI Accéder directement au contenu
Article Dans Une Revue Bioinformatics Année : 2012

SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data.

Résumé

MOTIVATION: The application of Next-Generation Sequencing (NGS) technologies to RNAs directly extracted from a community of organisms yields a mixture of fragments characterizing both coding and non-coding types of RNAs. The tasks to distinguish among these and to further categorize the families of messenger RNAs and ribosomal RNAs is an important step for examining gene expression patterns of an interactive environment and the phylogenetic classification of the constituting species. RESULTS: We present SortMeRNA, a new software designed to rapidly filter ribosomal RNA fragments from metatranscriptomic data. It is capable of handling large sets of reads and sorting out all fragments matching to the rRNA database with high sensitivity and low running time. AVAILABILITY: http://bioinfo.lifl.fr/RNA/sortmerna CONTACT: evguenia.kopylova@lifl.fr SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Fichier principal
Vignette du fichier
pp_BIOINFORMATICS12_preprint.pdf (205.15 Ko) Télécharger le fichier
Origine : Fichiers produits par l'(les) auteur(s)
Loading...

Dates et versions

hal-00748990 , version 1 (16-12-2013)

Identifiants

Citer

Evguenia Kopylova, Laurent Noé, Héléne Touzet. SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data.. Bioinformatics, 2012, 28 (24), pp.3211-3217. ⟨10.1093/bioinformatics/bts611⟩. ⟨hal-00748990⟩
1122 Consultations
683 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More