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Gene Selection in Time-Series Gene Expression Data

  • Prem Raj Adhikari
  • Bimal Babu Upadhyaya
  • Chen Meng
  • Jaakko Hollmén
Part of the Lecture Notes in Computer Science book series (LNCS, volume 7036)

Abstract

The dimensionality of biological data is often very high. Feature selection can be used to tackle the problem of high dimensionality. However, majority of the work in feature selection consists of supervised feature selection methods which require class labels. The problem further escalates when the data is time–series gene expression measurements that measure the effect of external stimuli on biological system. In this paper we propose an unsupervised method for gene selection from time–series gene expression data founded on statistical significance testing and swap randomization. We perform experiments with a publicly available mouse gene expression dataset and also a human gene expression dataset describing the exposure to asbestos. The results in both datasets show a considerable decrease in number of genes.

Keywords

Feature Selection Statistical Significance Time–series Randomization 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2011

Authors and Affiliations

  • Prem Raj Adhikari
    • 1
  • Bimal Babu Upadhyaya
    • 1
  • Chen Meng
    • 2
  • Jaakko Hollmén
    • 1
  1. 1.Department of Information and Computer ScienceAalto University School of ScienceAaltoFinland
  2. 2.Department of Computational BiologyRoyal Institute of Technology, School of Computer Science and CommunicationStockholmSweden

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