NDLI: Functional Gene Networks: A Preliminary Study on a Modified Genetic Algorithm for Candidate Discovery in Large Microarray Datasets

Content Provider	IEEE Xplore Digital Library
Author	Ye Zhang Westhead, D.R.
Copyright Year	2007
Description	Author affiliation: Chinese Univ. of Hong Kong, Shenzhen (Ye Zhang)
Abstract	This paper reports a preliminary study on the discovery of potential gene networks in large gene expression data by applying an island model genetic algorithm for optimizing search. Candidates for networks are defined as highly correlated gene expression subsets in test data derived from the Arabidopsis gene expression atlas - AtGenExpress. A study of algorithm parameters primarily focuses on fitness function calibration. Preliminary results show initial solution size to dominate the direction of chromosome evolution, while the fitness constant dictates the range of solution sizes which have such influence on the fitness function. Optimal fitness constants and initial solution size of chromosomes have been resolved to 1.001, and 30% of data size, respectively to minimize subset size influence, and bias Illness towards small highly correlated sets which are more biologically likely to form networks.
Starting Page	123
Ending Page	126
File Size	186240
Page Count	4
File Format	PDF
ISBN	1424410916
DOI	10.1109/ICITECHNOLOGY.2007.4290444
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2007-03-20
Publisher Place	China
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Algorithm design and analysis microarray analysis Biological system modeling Island model genetic algorithm Stochastic processes fitness function gene network Gene expression Biological information theory Biological cells Genetic algorithms gene expression correlation Evolution (biology) Sampling methods Testing
Content Type	Text
Resource Type	Article

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