CoverageAnalyzer (CAn): A Tool for Inspection of Modification Signatures in RNA Sequencing Profiles.
Fiche publication
Date publication
novembre 2016
Journal
Biomolecules
Auteurs
Membres identifiés du Cancéropôle Est :
Pr MOTORINE Iouri
Tous les auteurs :
Hauenschild R, Werner S, Tserovski L, Hildebrandt A, Motorin Y, Helm M
Lien Pubmed
Résumé
Combination of reverse transcription (RT) and deep sequencing has emerged as a powerful instrument for the detection of RNA modifications, a field that has seen a recent surge in activity because of its importance in gene regulation. Recent studies yielded high-resolution RT signatures of modified ribonucleotides relying on both sequence-dependent mismatch patterns and reverse transcription arrests. Common alignment viewers lack specialized functionality, such as filtering, tailored visualization, image export and differential analysis. Consequently, the community will profit from a platform seamlessly connecting detailed visual inspection of RT signatures and automated screening for modification candidates. CoverageAnalyzer (CAn) was developed in response to the demand for a powerful inspection tool. It is freely available for all three main operating systems. With SAM file format as standard input, CAn is an intuitive and user-friendly tool that is generally applicable to the large community of biomedical users, starting from simple visualization of RNA sequencing (RNA-Seq) data, up to sophisticated modification analysis with significance-based modification candidate calling.
Mots clés
Computational Biology, methods, Gene Expression Profiling, methods, High-Throughput Nucleotide Sequencing, Sequence Analysis, RNA, methods, Software, User-Computer Interface
Référence
Biomolecules. 2016 11 10;6(4):