SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing.

ABSTRACT:

Motivation

Deep sequencing of the transcripts of regulatory non-coding RNA generates footprints of post-transcriptional processes. After obtaining sequence reads, the short reads are mapped to a reference genome, and specific mapping patterns can be detected called read mapping profiles, which are distinct from random non-functional degradation patterns. These patterns reflect the maturation processes that lead to the production of shorter RNA sequences. Recent next-generation sequencing studies have revealed not only the typical maturation process of miRNAs but also the various processing mechanisms of small RNAs derived from tRNAs and snoRNAs.

Results

We developed an algorithm termed SHARAKU to align two read mapping profiles of next-generation sequencing outputs for non-c

SUBMITTER: Tsuchiya M 

PROVIDER: S-EPMC4908357 | biostudies-literature | 2016 Jun

REPOSITORIES: biostudies-literature