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Bioinformatics 2008 24(16):i63-i69; doi:10.1093/bioinformatics/btn264
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© The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Fusing time series expression data through hybrid aggregation and hierarchical merge

Elena Tsiporkova 1 and Veselka Boeva 2,*

1Innovation Center – East Flanders, House of Economy, Seminariestraat and 2, B-9000 Ghent, Belgium and 2Computer Systems and Technologies Department, Technical University of Sofia – branch Plovdiv, Tsanko Dyustabanov 25, 4000 Plovdiv, Bulgaria

*To whom correspondence should be addressed.


  Abstract

Summary: A novel integration approach targeting the combination of multi-experiment time series expression data is proposed. A recursive hybrid aggregation algorithm is initially employed to extract a set of genes, which are eventually of interest for the biological phenomenon under study. Next, a hierarchical merge procedure is specifically developed for the purpose of fusing together the multiple-experiment expression profiles of the selected genes. This employs dynamic time warping alignment techniques in order to account adequately for the potential phase shift between the different experiments. We subsequently demonstrate that the resulting gene expression profiles consistently reflect the behavior of the original expression profiles in the different experiments.

Contact: vboeva{at}tu-plovdiv.bg

Supplementary information: Supplementary data are available at http://www.tu-plovdiv.bg/Container/bi/DataIntegration/


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