Published in

Oxford University Press (OUP), Bioinformatics, 1(28), p. 17-24

DOI: 10.1093/bioinformatics/btr598

Links

Tools

Export citation

Search in Google Scholar

deepBlockAlign: a tool for aligning RNA-seq profiles of read block patterns

Journal article published in 2011 by David Langenberger ORCID, Sachin Pundhir, Claus T. Ekstrøm, Peter F. Stadler ORCID, Steve Hoffmann, Jan Gorodkin
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

Full text: Download

Green circle
Preprint: archiving allowed
Upload
Green circle
Postprint: archiving allowed
Upload
Red circle
Published version: archiving forbidden
Policy details
Data provided by SHERPA/RoMEO

Abstract

Motivation: High-throughput sequencing methods allow whole transcriptomes to be sequenced fast and cost-effectively. Short RNA sequencing provides not only quantitative expression data but also an opportunity to identify novel coding and non-coding RNAs. Many long transcripts undergo post-transcriptional processing that generates short RNA sequence fragments. Mapped back to a reference genome, they form distinctive patterns that convey information on both the structure of the parent transcript and the modalities of its processing. The miR-miR* pattern from microRNA precursors is the best-known, but by no means singular, example.