Universiti Teknologi Malaysia Institutional Repository

Three-stage method for selecting informative genes for cancer classification

Mohamad, Mohd Saberi and Omatu, Sigeru and Deris, Safaai and Yoshioka, Michifumi (2009) Three-stage method for selecting informative genes for cancer classification. IEEJ Transactions on Electrical and Electronic Engineering, 4 (6). 725 -730. ISSN 1931-4973

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Official URL: http://dx.doi.org/10.1002/tee.20471

Abstract

Gene expression data produced by microarray machines are useful for cancer classification. However, the process of gene selection for the classification faces a major problem because of the properties of the data such as the small number of samples compared with the huge number of genes (high-dimensional data), irrelevant genes, and noisy data. Hence, this paper proposes a three-stage method to select a small subset of informative genes which is most relevant for the cancer classification. It has three stages: (i) pre-selecting genes using a filter method to produce a subset of genes; (ii) optimizing the gene subset using a multi-objective hybrid method to yield near-optimal subsets of genes; (iii) analyzing the frequency of appearance of each gene in the different near-optimal gene subsets to produce a small (final) subset of informative genes. Five gene expression data sets are used to test the effectiveness of the proposed method. Experimental results show that the performance of the proposed method is superior to other experimental methods and related previous works. A list of informative genes in the final gene subset is also presented for biological usage.

Item Type:Article
Uncontrolled Keywords:cancer classification, gene selection, genetic algorithm, hybrid method, three-stage method
Subjects:Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Divisions:Computer Science and Information System (Formerly known)
ID Code:13154
Deposited By: Liza Porijo
Deposited On:20 Jul 2011 09:37
Last Modified:20 Jul 2011 09:37

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