Detection and classification of peaks in 5' cap RNA sequencing data.

ABSTRACT:

Background

The large-scale sequencing of 5' cap enriched cDNA promises to reveal the diversity of transcription initiation across entire genomes. The process of transcription is noisy, and there is often no single, exact start site. This creates the need for a fast and simple method of identifying transcription start peaks based on this type of data. Due to both biological and technical noise, many of the peaks seen are not real transcription initiation events. Classification of the observed peaks is an essential filtering step in the discovery of genuine initiation locations.

Results

We develop a two-stage approach consisting of a fast and simple algorithm based on a sliding window with Poisson null distribution for detecting the genomic locations of peaks, followed by a li

SUBMITTER: Strbenac D 

PROVIDER: S-EPMC3852351 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature