PARma: identification of microRNA target sites in AGO-PAR-CLIP data

Erhard, Florian; Doelken, Lars; Jaskiewicz, Lukasz und Zimmer, Ralf (2013): PARma: identification of microRNA target sites in AGO-PAR-CLIP data. In: Genome Biology 14:R79

Abstract

PARma is a complete data analysis software for AGO-PAR-CLIP experiments to identify target sites of microRNAs as well as the microRNA binding to these sites. It integrates specific characteristics of the experiments into a generative model. The model and a novel pattern discovery tool are iteratively applied to data to estimate seed activity probabilities, cluster confidence scores and to assign the most probable microRNA. Based on differential PAR-CLIP analysis and comparison to RIP-Chip data, we show that PARma is more accurate than existing approaches. PARma is available from http://www.bio.ifi.lmu.de/PARma

• Dokumententyp: Zeitschriftenartikel
• Publikationsform: Publisher's Version
• Fakultät: Mathematik, Informatik und Statistik > Informatik
• Themengebiete: 000 Informatik, Informationswissenschaft, allgemeine Werke > 000 Informatik, Wissen, Systeme ; 500 Naturwissenschaften und Mathematik > 570 Biowissenschaften; Biologie
• ISSN: 1465-6906
• Sprache: Englisch