My role is to address the requirements of CPIB for optimal parameter values involved in the ordinary differential equations (ODEs) developed by mathematicians to model the dynamic systems of biological pathways. Such models include the S-system which was developed to model gene regulatory networks and metabolic pathways. The kinetic parameters in the S-system reflect the interactions among the genes (or metabolites), which are estimated from the experimental data.
Published Work
- Jianyong Sun, Jonathan M. Garibaldi, Kim Kenobi (2012) Robust Bayesian Clustering for Replicated Gene Expression Data. Accepted for publication in IEEE/ACM Transactions on Computational Biology and Bioinformatics
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- Leah R Band*, Darren M. Wells*, Antoine Larrieu*, Jianyong Sun*, Alistair M. Middleton*, Andrew P. French, Géraldine Brunoud, Ethel Mendocilla Sato, Michael H. Wilson, Benjamin Péret, Marina Oliva, Ranjan Swarup, Ilkka Sairanen, Geraint Parry, Karin Ljung, Tom Beeckman, Jonathan M. Garibaldi, Mark Estelle, Markus R. Owen, Kris Vissenberg, T. Charlie Hodgman, Tony P. Pridmore, John R King, Teva Vernoux, Malcolm J Bennett (2012) Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping point mechanism. PNAS 109, 4668–4673 [* these authors contributed equally]
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- Sun J, Garibaldi JM, Krasnogor N, Zhang Q (2012) An Intelligent Multi-Restart Memetic Algorithm for Unconstrained Global Optimization. Evolutionary Computation, MIT Press.
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- Sun J (2011) Two-stage EDA-based approach for all optical WDM mesh network survivability under SRLG constraints. Applied Soft Computing 11, 916–926
- Sun J, Zhang Q, Li J (2010) Two-level evolutionary approach to the survivable mesh-based transport network topological design. Journal of Heuristics 16, 723–744
- Sun J, Kaban A (2010) A fast algorithm for robust mixtures in the presence of measurement errors. IEEE Transactions on Neural Networks 21, 1206–1220
Presented Work
- Auxin redistribution during root gravitropism: a systems biology approach. At: Plant Systems Biology Workshop, University of Nottingham, UK 1st-3rd June 2010 Band L, Sun J, Larrieu A, Wells D
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