A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production

A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production

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 stea...

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Main Authors: Mohd Arfian, Ismail, Safaai, Deris, Mohd Saberi, Mohamad, Afnizanfaizal, Abdullah
Format: Article
Language:English
Published: Public Library of Science 2015
Subjects:
QA75 Electronic computers. Computer science
QD Chemistry
Online Access:http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/1/A%20Newton%20Cooperative%20Genetic%20Algorithm%20Method%20for%20In%20Silico%20Optimization%20of%20Metabolic%20Pathway%20Production.pdf
id ump-11777
recordtype eprints
spelling ump-117772018-03-27T03:45:30Z http://umpir.ump.edu.my/id/eprint/11777/ A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production Mohd Arfian, Ismail Safaai, Deris Mohd Saberi, Mohamad Afnizanfaizal, Abdullah QA75 Electronic computers. Computer science QD Chemistry 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. Public Library of Science 2015 Article PeerReviewed application/pdf en cc_by http://umpir.ump.edu.my/id/eprint/11777/1/A%20Newton%20Cooperative%20Genetic%20Algorithm%20Method%20for%20In%20Silico%20Optimization%20of%20Metabolic%20Pathway%20Production.pdf Mohd Arfian, Ismail and Safaai, Deris and Mohd Saberi, Mohamad and Afnizanfaizal, Abdullah (2015) A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production. PLoS ONE, 10 (5). pp. 1-19. ISSN 1932-6203 http://dx.doi.org/10.1371/journal.pone.0126199 DOI: 10.1371/journal.pone.0126199
repository_type Digital Repository
institution_category Local University
institution Universiti Malaysia Pahang
building UMP Institutional Repository
collection Online Access
language English
topic QA75 Electronic computers. Computer science
QD Chemistry
spellingShingle QA75 Electronic computers. Computer science
QD Chemistry
Mohd Arfian, Ismail
Safaai, Deris
Mohd Saberi, Mohamad
Afnizanfaizal, Abdullah
A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
description 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.
format Article
author Mohd Arfian, Ismail
Safaai, Deris
Mohd Saberi, Mohamad
Afnizanfaizal, Abdullah
author_facet Mohd Arfian, Ismail
Safaai, Deris
Mohd Saberi, Mohamad
Afnizanfaizal, Abdullah
author_sort Mohd Arfian, Ismail
title A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
title_short A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
title_full A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
title_fullStr A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
title_full_unstemmed A Newton Cooperative Genetic Algorithm Method for In Silico Optimization of Metabolic Pathway Production
title_sort newton cooperative genetic algorithm method for in silico optimization of metabolic pathway production
publisher Public Library of Science
publishDate 2015
url http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/
http://umpir.ump.edu.my/id/eprint/11777/1/A%20Newton%20Cooperative%20Genetic%20Algorithm%20Method%20for%20In%20Silico%20Optimization%20of%20Metabolic%20Pathway%20Production.pdf
first_indexed 2023-09-18T22:12:44Z
last_indexed 2023-09-18T22:12:44Z
_version_ 1777415135883689984

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