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TagDust--a program to eliminate artifacts from next generation sequencing data.

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@gmail.com.

SUBMITTER: Lassmann T

PROVIDER: S-EPMC2781754 | biostudies-literature | 2009 Nov

REPOSITORIES: biostudies-literature

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TagDust--a program to eliminate artifacts from next generation sequencing data.

Lassmann Timo T Hayashizaki Yoshihide Y Daub Carsten O CO

Bioinformatics (Oxford, England) 20090907 21

<h4>Motivation</h4>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.<h4>Results</h4>Here we present TagDust, a program identifying artifactual sequences in large sequenc ...[more]

PMID: 19737799

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