Inference of gene expression networks using memetic gene expression programming

Authors:
Armita Zarnegar;Peter Vamplew;Andrew Stranieri
Affiliations:
University of Ballarat, Ballarat, Victoria, Australia;University of Ballarat, Ballarat, Victoria, Australia;University of Ballarat, Ballarat, Victoria, Australia
Venue:
ACSC '09 Proceedings of the Thirty-Second Australasian Conference on Computer Science - Volume 91
Year:
2009

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Abstract

In this paper we aim to infer a model of genetic networks from time series data of gene expression profiles by using a new gene expression programming algorithm. Gene expression networks are modelled by differential equations which represent temporal gene expression relations. Gene Expression Programming is a new extension of genetic programming. Here we combine a local search method with gene expression programming to form a memetic algorithm in order to find not only the system of differential equations but also fine tune its constant parameters. The effectiveness of the proposed method is justified by comparing its performance with that of conventional genetic programming applied to this problem in previous studies.