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Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles

  • Numanul Subhani
  • Alioune Ngom
  • Luis Rueda
  • Conrad Burden
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5780)

Abstract

Genes with similar expression profiles are expected to be functionally related or co-regulated. In this direction, clustering microarray time-series data via pairwise alignment of piece-wise linear profiles has been recently introduced. We propose a k-means clustering approach based on a multiple alignment of natural cubic spline representations of gene expression profiles. The multiple alignment is achieved by minimizing the sum of integrated squared errors over a time-interval, defined on a set of profiles. Preliminary experiments on a well-known data set of 221 pre-clustered Saccharomyces cerevisiae gene expression profiles yields excellent results with 79.64% accuracy.

Keywords

Microarrays Time-Series Data Gene Expression Profiles Profile Alignment Cubic Spline k-Means Clustering 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2009

Authors and Affiliations

  • Numanul Subhani
    • 1
  • Alioune Ngom
    • 1
  • Luis Rueda
    • 1
  • Conrad Burden
    • 2
  1. 1.School of Computer Science, 5115 Lambton TowerUniversity of WindsorWindsorCanada
  2. 2.Centre for Bioinformation Science, Mathematical Sciences Institute and John Curtin School of Medical ResearchThe Australian National UniversityCanberraAustralia

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