TriClust: A Tool for Cross-Species Analysis of Gene Regulation
Article first published online: 13 MAY 2014
© 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim
Volume 33, Issue 5, pages 382–387, May 2014
How to Cite
Dede, D. and Oğul, H. (2014), TriClust: A Tool for Cross-Species Analysis of Gene Regulation. Mol. Inf., 33: 382–387. doi: 10.1002/minf.201400007
- Issue published online: 21 MAY 2014
- Article first published online: 13 MAY 2014
- Manuscript Accepted: 19 MAR 2014
- Manuscript Received: 21 JAN 2014
- Başkent University. Grant Numbers: BA12/FM-10, TUBITAK 113E527
- Simultaneous clustering;
- Three-way clustering;
- Multi-way analysis;
- Biological data analysis.
We present a software tool, called TriClust, for multi-way analysis of gene expression data from paired conditions of multiple organisms. The analysis is based on a new concept called triclustering, which is an extension of biclustering over a third dimension that represents the organism where the microarray experiment is performed. TriClust provides a comprehensive analysis of co-regulated genes under a subset of experimental conditions over multiple organisms. The results are visualized using heat-maps and the Gene Ontology (GO) term enrichment statistics. The experimental results indicate that TriClust can successfully identify biologically significant triclusters and promote a useful tool for cross species analysis of gene regulation from microarray expression data. The statistical results suggest that, when available, triclustering on multi-organism data can result in better gene clusters in comparison to biclustering on single-organism data. The TriClust software is publicly available as a standalone program.