A newton cooperative genetic algorithm method for in silico optimization of metabolic pathway production

• Main Authors: Ismail, Mohd. Arfian, Deris, Safaai, Aberi Mohamad, Mohd Saberi, Abdullah, Afnizanfaizal
• Format: Article
• Published: Public Library of Science 2015
• Subjects: QA76 Computer software
• Online Access: http://eprints.utm.my/id/eprint/55742/; http://dx.doi.org/10.1371/journal.pone.0126199
• Institution: Universiti Teknologi Malaysia

This paper presents an in silico optimization method of metabolic pathway production. The metabolic pathway can be represented by a mathematical model known as the generalized mass action model, which leads to a complex nonlinear equations system. The optimization process becomes difficult when steady state and the constraints of the components in the metabolic pathway are involved. To deal with this situation, this paper presents an in silico optimization method, namely the Newton Cooperative Genetic Algorithm (NCGA). The NCGA used Newton method in dealing with the metabolic pathway, and then integrated genetic algorithm and cooperative co-evolutionary algorithm. The proposed method was experimentally applied on the benchmark metabolic pathways, and the results showed that the NCGA achieved better results compared to the existing methods.