標題: Interpretable gene expression classifier with an accurate and compact fuzzy rule base for microarray data analysis
作者: Ho, Shinn-Ying
Hsieh, Chih-Hung
Chen, Hung-Ming
Huang, Hui-Ling
生物科技學系
生物資訊及系統生物研究所
Department of Biological Science and Technology
Institude of Bioinformatics and Systems Biology
關鍵字: fuzzy classifier;gene expression;intelligent genetic algorithm;microarray data analysis;pattern recognition
公開日期: 1-九月-2006
摘要: An accurate classifier with linguistic interpretability using a small number of relevant genes is beneficial to microarray data analysis and development of inexpensive diagnostic tests. Several frequently used techniques for designing classifiers of microarray data, such as support vector machine, neural networks, k-nearest neighbor, and logistic regression model, suffer from low interpretabilities. This paper proposes an interpretable gene expression classifier (named iGEC) with an accurate and compact fuzzy rule base for microarray data analysis. The design of iGEC has three objectives to be simultaneously optimized: maximal classification accuracy, minimal number of rules, and minimal number of used genes. An "intelligent" genetic algorithm IGA is used to efficiently solve the design problem with a large number of tuning parameters. The performance of iGEC is evaluated using eight commonly-used data sets. It is shown that iGEC has an accurate, concise, and interpretable rule base (1.1 rules per class) on average in terms of test classification accuracy (87.9%), rule number (3.9), and used gene number (5.0). Moreover, iGEC not only has better performance than the existing fuzzy rule-based classifier in terms of the above-mentioned objectives, but also is more accurate than some existing non-rule-based classifiers. (c) 2006 Elsevier Ireland Ltd. All rights reserved.
URI: http://dx.doi.org/10.1016/j.biosystems.2006.01.002
http://hdl.handle.net/11536/11802
ISSN: 0303-2647
DOI: 10.1016/j.biosystems.2006.01.002
期刊: BIOSYSTEMS
Volume: 85
Issue: 3
起始頁: 165
結束頁: 176
顯示於類別:期刊論文


文件中的檔案:

  1. 000240571300001.pdf