SortMeRNA: Fast and accurate filtering of ...
Type de document :
Compte-rendu et recension critique d'ouvrage
PMID :
Titre :
SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data.
Auteur(s) :
Kopylova, Evguenia [Auteur correspondant]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Noé, Laurent [Auteur]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Touzet, Helene [Auteur]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Noé, Laurent [Auteur]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Touzet, Helene [Auteur]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Bioinformatics and Sequence Analysis [BONSAI]
Titre de la revue :
Bioinformatics
Pagination :
3211-3217
Éditeur :
Oxford University Press (OUP)
Date de publication :
2012-10-15
ISSN :
1367-4803
Discipline(s) HAL :
Informatique [cs]/Bio-informatique [q-bio.QM]
Sciences du Vivant [q-bio]/Bio-Informatique, Biologie Systémique [q-bio.QM]
Informatique [cs]/Algorithme et structure de données [cs.DS]
Sciences du Vivant [q-bio]/Bio-Informatique, Biologie Systémique [q-bio.QM]
Informatique [cs]/Algorithme et structure de données [cs.DS]
Résumé en anglais : [en]
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. ...
Lire la suite >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.Lire moins >
Lire la suite >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.Lire moins >
Langue :
Anglais
Vulgarisation :
Non
Collections :
Source :
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