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Bioinformatics Advance Access originally published online on November 17, 2005
Bioinformatics 2006 22(2):251-252; doi:10.1093/bioinformatics/bti787
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oxfordjournals.org

Gene Time E{chi}pression Warper: a tool for alignment, template matching and visualization of gene expression time series

Jo Criel 1 and Elena Tsiporkova 2,*

1Devgen N.V., Science IT Technologiepark 30, B-9052 Ghent, Belgium
2Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology (VIB), Ghent University Technologiepark 927, B-9052, Ghent, Belgium

*To whom correspondence should be addressed.

Summary: An application tool for alignment, template matching and visualization of gene expression time series is presented. The core algorithm is based on dynamic time warping techniques used in the speech recognition field. These techniques allow for non-linear (elastic) alignment of temporal sequences of feature vectors and consequently enable detection of similar shapes with different phases.

Availability: The Java program, examples and a tutorial are available at http://www.psb.ugent.be/cbd/papers/gentxwarper/

Contact: eltsi{at}psb.ugent.be

Received on July 27, 2005; revised on September 20, 2005; accepted on November 15, 2005

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