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

Erhard, Florian; Doelken, Lars; Jaskiewicz, Lukasz; 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

• Item Type: Journal article
• Form of publication: Publisher's Version
• Faculties: Mathematics, Computer Science and Statistics > Computer Science
• Subjects: 000 Computer science, information and general works > 000 Computer science, knowledge, and systems; 500 Science > 570 Life sciences; biology
• ISSN: 1465-6906
• Language: English