ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq

作者：Kucukural Alper^*; Oezadam Hakan; Singh Guramrit; Moore Melissa J; Cenik Can

来源：Bioinformatics, 2013, 29(19): 2485-2486.

DOI：10.1093/bioinformatics/btt428

Unlike DNA, RNA abundances can vary over several orders of magnitude. Thus, identification of RNA-protein binding sites from high-throughput sequencing data presents unique challenges. Although peak identification in ChIP-Seq data has been extensively explored, there are few bioinformatics tools tailored for peak calling on analogous datasets for RNA-binding proteins. Here we describe ASPeak (abundance sensitive peak detection algorithm), an implementation of an algorithm that we previously applied to detect peaks in exon junction complex RNA immunoprecipitation in tandem experiments. Our peak detection algorithm yields stringent and robust target sets enabling sensitive motif finding and downstream functional analyses.

• 出版日期2013-10-1