Genetic algorithms for gene expression analysis

Authors:
Ed Keedwell;Ajit Narayanan
Affiliations:
School of Engineering and Computer Science, University of Exeter, Exeter;School of Engineering and Computer Science, University of Exeter, Exeter
Venue:
EvoWorkshops'03 Proceedings of the 2003 international conference on Applications of evolutionary computing
Year:
2003

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Abstract

The major problem for current gene expression analysis techniques is how to identify the handful of genes which contribute to a disease from the thousands of genes measured on gene chips (microarrays). The use of a novel neural-genetic hybrid algorithm for gene expression analysis is described here. The genetic algorithm identifies possible gene combinations for classification and then uses the output from a neural network to determine the fitness of these combinations. Normal mutation and crossover operations are used to find increasingly fit combinations. Experiments on artificial and real-world gene expression databases are reported. The results from the algorithm are also explored for biological plausibility and confirm that the algorithm is a powerful alternative to standard data mining techniques in this domain.