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Bioinformatics Advance Access originally published online on September 7, 2009
Bioinformatics 2009 25(21):2839-2840; doi:10.1093/bioinformatics/btp527
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© The Author(s) 2009. Published by Oxford University Press.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

TagDust—a program to eliminate artifacts from next generation sequencing data

Timo Lassmann *, Yoshihide Hayashizaki and Carsten O. Daub *

Omics Science Center, Riken Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan

* To whom correspondence should be addressed.


  Abstract

Motivation: Next-generation parallel sequencing technologies produce large quantities of short sequence reads. Due to experimental procedures various types of artifacts are commonly sequenced alongside the targeted RNA or DNA sequences. Identification of such artifacts is important during the development of novel sequencing assays and for the downstream analysis of the sequenced libraries.

Results: Here we present TagDust, a program identifying artifactual sequences in large sequencing runs. Given a user-defined cutoff for the false discovery rate, TagDust identifies all reads explainable by combinations and partial matches to known sequences used during library preparation. We demonstrate the quality of our method on sequencing runs performed on Illumina's Genome Analyzer platform.

Availability: Executables and documentation are available from http://genome.gsc.riken.jp/osc/english/software/.

Contact: timolassmann{at}gmail.com

Associate Editor: Joaquin Dopazo

Received on February 23, 2009; revised on August 25, 2009; accepted on September 1, 2009

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