Universiti Teknologi Malaysia Institutional Repository

Parameter estimation of microbial models using hybrid optimization methods

Abdullah, Afnizanfaizal (2013) Parameter estimation of microbial models using hybrid optimization methods. PhD thesis, Universiti Teknologi Malaysia, Faculty of Computing.


Official URL: http://dms.library.utm.my:8080/vital/access/manage...


Development of biological models is essential as it represents and predicts complex processes within microbial cells. These models are formed by mathematical formulations that depend heavily on a set of parameters whose accuracy is often influenced by noisy and incomplete experimental data. This study is aimed to design and develop new optimization methods that can effectively estimate these parameters by iteratively fitting the model outputs to the experimental data. To achieve this goal, two new hybrid optimization methods based on the Firefly Algorithm (FA) method are proposed. Firstly, a method using evolutionary operations from Differential Evolution (DE) method was developed to improve the estimation accuracy of the parameters. Then, a second method using Chemical Reaction Optimization (CRO) method was proposed to surmount the convergence speed problem during parameter estimation. The effectiveness of the proposed methods was evaluated using synthetic transcriptional oscillator and extracellular protease production models. Computational experiments showed that these methods were able to estimate plausible parameters which produced model outputs that closely fitted in the experimental data. Statistical validation confirmed that these methods are competent at estimating the identifiable parameters. These findings are crucial to ensure that the estimated parameters can generate predictive and sensitive model outputs. In conclusion, this study has presented new hybrid optimization methods, capable of estimating the model parameters effectively whilst taking into account noisy and incomplete experimental data.

Item Type:Thesis (PhD)
Additional Information:Thesis (Ph.D (Sains Komputer)) - Universiti Teknologi Malaysia, 2013; Supervisor : Prof. Dr. Safa'ai Deris
Uncontrolled Keywords:parameter estimation, computational biology
Subjects:Q Science > QA Mathematics
ID Code:35875
Deposited By: Kamariah Mohamed Jong
Deposited On:16 Feb 2014 12:52
Last Modified:02 Aug 2017 11:57

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