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Parameter Optimization in Hierarchical Structures

  • Shugo Hamahashi
  • Hiroaki Kitano
Part of the Lecture Notes in Computer Science book series (LNCS, volume 1674)

Abstract

The genetic-algorithm-based method described in this paper can be used to identify a parameter set whose value defines the gene regulation circuit. To demonstrate the effectiveness of the approach we choose Drosophila segmentation processes. In the processes, we search the parameter set of diffusion constant and transcription ratio of each gene. The characteristics of convergence were also investigated in order to find out how to improve the method. The results suggest that (1) when the gene regulatory network is hierarchically structured, genetic algorithm optimize the upstream parameters earlier than that of downstream in the hierarchy structure, (2) some gene network has smooth concave error surface with no local minima, and (3) the method can be used to test appropriateness of the basic model assumed.

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References

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    Shugo Hamahashi and Hiroaki Kitano: Simulation of Drosophila Embryogenesis. In Proceedings of the Sixth International Conference on Artificial Life (1998) 151–160Google Scholar
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    John Reinitz, Eric Mjolsness, and David H. Sharp: Model for cooperative control of positional information in Drosophila by bicoid and maternal hunchback. J. Exp. Zool, (1995) 47–56Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 1999

Authors and Affiliations

  • Shugo Hamahashi
    • 1
    • 2
  • Hiroaki Kitano
    • 1
    • 3
  1. 1.Kitano Symbiotic Systems ProjectERATO, JSTTokyoJapan
  2. 2.Department of Computer Science Graduate School of Science and TechnologyKeio UniversityYokohamaJapan
  3. 3.Sony Computer Science Laboratories Inc.TokyoJapan

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