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TriClust: A Tool for Cross-Species Analysis of Gene Regulation

Authors

  • Duygu Dede,

    Corresponding author
    1. Department of Computer Engineering, Başkent University, Bağlıca Campus, Eskişehir yolu, Etimesgut/Ankara, Turkey phone: +90 312 246 66 66
    • Department of Computer Engineering, Başkent University, Bağlıca Campus, Eskişehir yolu, Etimesgut/Ankara, Turkey phone: +90 312 246 66 66===

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  • Hasan Oğul

    1. Department of Computer Engineering, Başkent University, Bağlıca Campus, Eskişehir yolu, Etimesgut/Ankara, Turkey phone: +90 312 246 66 66
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Abstract

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.

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