Journal Article

Robust synthetic biology design: stochastic game theory approach

Bor-Sen Chen, Chia-Hung Chang and Hsiao-Ching Lee

in Bioinformatics

Volume 25, issue 14, pages 1822-1830
Published in print July 2009 | ISSN: 1367-4803
Published online May 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp310

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Motivation: Synthetic biology is to engineer artificial biological systems to investigate natural biological phenomena and for a variety of applications. However, the development of synthetic gene networks is still difficult and most newly created gene networks are non-functioning due to uncertain initial conditions and disturbances of extra-cellular environments on the host cell. At present, how to design a robust synthetic gene network to work properly under these uncertain factors is the most important topic of synthetic biology.

Results: A robust regulation design is proposed for a stochastic synthetic gene network to achieve the prescribed steady states under these uncertain factors from the minimax regulation perspective. This minimax regulation design problem can be transformed to an equivalent stochastic game problem. Since it is not easy to solve the robust regulation design problem of synthetic gene networks by non-linear stochastic game method directly, the Takagi–Sugeno (T–S) fuzzy model is proposed to approximate the non-linear synthetic gene network via the linear matrix inequality (LMI) technique through the Robust Control Toolbox in Matlab. Finally, an in silico example is given to illustrate the design procedure and to confirm the efficiency and efficacy of the proposed robust gene design method.

Availability: http://www.ee.nthu.edu.tw/bschen/SyntheticBioDesign_supplement.pdf

Contact: bschen@ee.nthu.edu.tw

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  6564 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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