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A memetic inference method for gene regulatory networks based on S-Systems

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4 Author(s)
Spieth, C. ; Centre for Bioinformatics Tubingen, Univ. of Tubingen, Germany ; Streichert, F. ; Speer, N. ; Zell, A.

In this paper, we address the problem of finding gene regulatory networks from experimental DNA microarray data. As underlying mathematical model we used S-Systems, a quantitative model, which recently has found increased attention in the literature. Due to the complexity of the inference problem some researchers suggested evolutionary algorithms for this purpose. We introduce enhancements to this optimization process to infer the parameters of sparsely connected non-linear systems given by the observed data more reliably and precisely. Due to the limited number of available data the inferring problem is under-determined and ambiguous. Further on, the problem often is multi-modal and therefore appropriate optimization strategies become necessary. In this paper, we propose a new method, which evolves the topology as well as the parameters of the mathematical model to find the correct network. This method is compared to standard algorithms found in the literature.

Published in:

Evolutionary Computation, 2004. CEC2004. Congress on  (Volume:1 )

Date of Conference:

19-23 June 2004