Hybrid differential evolution including geometric mean mutation for optimization of biochemical systems

Journal of the Taiwan Institute of Chemical Engineers

Volumn 41, Issue 1, 2010, Pages 65-72

  Liu, Pang Kai ^a   Wang, Feng Sheng ^a  

^a NATIONAL CHUNG CHENG UNIVERSITY   (Taiwan)

Author keywords

Evolutionary algorithm; Fed batch optimization; Genetic algorithm; Inverse problem; Parameter estimation

Indexed keywords

BIOCHEMICAL SYSTEMS; CONSTRAINED OPTIMIZATION PROBLEMS; FED BATCHES; FED-BATCH OPTIMIZATION; GEOMETRIC MEAN; HYBRID DIFFERENTIAL EVOLUTION; HYBRID DIFFERENTIAL EVOLUTION ALGORITHM; OTHER ALGORITHMS; PARAMETER SEARCH SPACE; PROCESS OPTIMIZATION;

COMPUTATIONAL FLUID DYNAMICS; GENETIC ALGORITHMS; INVERSE PROBLEMS; PARAMETER ESTIMATION; PROBLEM SOLVING;

CONSTRAINED OPTIMIZATION;

EID: 72149105046     PISSN: 18761070     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jtice.2009.05.010     Document Type: Article

References (39)

1. Angira R., and Santosh A. Optimization of Dynamic Systems: A Trigonometric Differential Evolution Approach. Computers and Chemical Engineering 31 (2007) 1055
2. Babu B.V., and Angira R. Modified Differential Evolution (MDE) for Optimization of Nonlinear Chemical Processes. Computers and Chemical Engineering 30 (2006) 989
3. Chen Y.F., and Wang F.S. Crisp and Fuzzy Optimization of a Fed-Batch Fermentation for Ethanol Production. Industrial and Engineering Chemistry Research 42 (2003) 6843
4. Cheng H.C., and Wang F.S. Parameter Estimation of Differential-Algebraic Systems Using Accessible Measurement. Journal of Chemical Engineering of Japan 37 (2004) 1390
5. Cheng H.C., and Wang F.S. Optimal Biocompatible Solvent Design for a Two-Stage Extractive Fermentation Process with Cell Recycling. Computers and Chemical Engineering 32 (2008) 1385
6. Chiou J.P., and Wang F.S. Hybrid Method of Evolutionary Algorithms for Static and Dynamic Optimization Problems with Application to a Fed-batch Fermentation Process. Computers and Chemical Engineering 23 (1999) 1277
7. Chiou J.P., and Wang F.S. Estimation of Monod Parameters by Hybrid Differential Evolution. Bioprocess and Biosystems Engineering 24 (2001) 109
8. Chiou J.P., Chang C.F., and Su C.T. Ant Direction Hybrid Differential Evolution for Solving Large Capacitor Placement Problems. IEEE Transactions on Power Systems 19 (2004) 1794
9. Chiou J.P. Variable Scaling Hybrid Differential Evolution for Large-Scale Economic Dispatch Problems. Electric Power Systems Research 77 (2007) 212
10. Fu P.C., and Barford J.P. Non-Singular Optimal Control for Fedbatch Fermentation Processes with a Differential-Algebraic System Model. Journal of Process Control 3 (1993) 211
11. Kimura S., Ide K., Kashihara A., Kano M., Hatakeyama M., Masui R., Nakagawa N., Yokoyama S., Kuramitsu S., and Konagaya A. Inference of S-System Models of Genetic Networks Using a Cooperative Coevolutionary Algorithm. Bioinformatics 21 (2005) 1154
12. Liao C.T., Tzeng W.J., and Wang F.S. Mixed-Integer Hybrid Differential Evolution for Synthesis of Chemical Processes. Journal of the Chinese Institute of Chemical Engineers 32 (2001) 491
13. Lin Y.C., Hwang K.S., and Wang F.S. Evolutionary Lagrange Method for Mixed-Integer Constrained Optimization Problems. Engineering Optimization 35 (2003) 267
14. Lin H.T., and Wang F.S. Optimal Design of an Integrated Fermentation Process for Lactic Acid Production. AIChE Journal 53 (2007) 449
15. Liu P.K., and Wang F.S. Inference of Biochemical Network Models in S-System Using Multiobjective Optimization Approach. Bioinformatics 24 (2008) 1085
16. Liu P.K., and Wang F.S. Inverse Problems of Biological Systems Using Multiobjective Optimization. Journal of the Chinese Institute of Chemical Engineers 39 (2008) 399
17. Lu J.C., and Wang F.S. Optimization of Low Pressure Chemical Vapor Deposition Reactors Using Hybrid Differential Evolution. Canadian Journal of Chemical Engineering 79 (2001) 246
18. Maki Y., Ueda T., Okamoto M., Uematsu N., Inamura K., and Uchida K. Inference of Genetic Network Using the Expression Profile Time Course Data of Mouse P19 Cells. Chem-BioInformatics Journal 13 (2002) 382
19. Mendes P. Modeling Large Biological Systems from Functional Genomic Data: Parameter Estimation. In: Kitano H. (Ed). Foundations of Systems Biology (2001), MIT Press, Cambridge, MA 163
20. Michalewicz Z. Genetic Algorithms + Data Structures = Evolution Programs (1996), Springer-Verlag Berlin Heidelberg, New York, USA
21. Michalewicz Z., and Schoenauer M. Evolutionary Algorithms for Constrained Parameter Optimization Problems. Evolutionary Computation 4 (1996) 1
22. Moles C.G., Mendes P., and Banga J.R. Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods. Genome Research 13 (2003) 2467
23. Powell M.J.D. Algorithms for Nonlinear Constraints that Use Lagrangian Functions. Mathematical Programming 14 (1978) 224
24. Rodriguez-Fernandez M., Mendes P., and Banga J.R. A Hybrid Approach for Efficient and Robust Parameter Estimation in Biochemical Pathways. BioSystems 83 (2006) 248
25. Schwefel H.P. Evolution and Optimal Seeking (1995), John Wiley and Sons Inc., New York
26. Srinivas M., and Rangaiah G.P. Differential Evolution with Tabu List for Global Optimization and Its Application to Phase Equilibrium and Parameter Estimation Problems. Industrial and Engineering Chemistry Research 46 (2007) 3410
27. Storn, R. and K. Price, Differential Evolution - A Simple and Efficient Adaptive Scheme for Global Optimization over Continuous Spaces, Technical Report, International Computer Science Institute, Berkley, CA (1995).
28. Storn R., and Price K.V. Minimizing the Real Functions of the ICEC '96 Contest by Differential Evolution. IEEE Conf. on Evolutionary Computation, 842. Nagoya (1996)
29. Storn R., and Price K.V. Differential Evolution: A Simple and Efficient Heuristic for Global Optimization over Continuous Spaces. Journal Global Optimization 11 (1997) 341
30. Tsai K.Y., and Wang F.S. Evolutionary Optimization with Data Collocation for Reverse Engineering of Biological Networks. Bioinformatics 21 (2005) 1180
31. Vesterstrom J., and Thomsen R. A Comparative Study of Differential Evolution, Particle Swarm Optimization, and Evolutionary Algorithms on Numerical Benchmark Problems. Proceedings of the 2004 Congress on Evolutionary Computation 2 (2004) 1980
32. Voit E.O., and Almeida J. Decoupling Dynamical Systems for Pathway Identification from Metabolic Profiles. Bioinformatics 20 (2004) 1670
33. Wang F.S., and Chiou J.P. Optimal Control and Optimal Time Location Problems of Differential-Algebraic Systems by Differential Evolution. Industrial and Engineering Chemistry Research 36 (1997) 5348
34. Wang F.S., Jing C.H., and Tsao G.T. Fuzzy Decision Making Problems of Fuel Ethanol Production Using a Genetically Engineered Yeast. Industrial and Engineering Chemistry Research 37 (1998) 3434
35. Wang F.S., and Cheng W.M. Simultaneous Optimization of Feeding Rate and Operation Parameters for Fed-Batch Fermentation Processes. Biotechnology Progress 15 (1999) 949
36. Wang F.S., and Jing C.H. Application of Hybrid Differential Evolution to Fuzzy Dynamic Optimization of a Batch Fermentation. J. Chin. Inst. Chem. Eng. 31 (2000) 443
37. Wang F.S., and Sheu J.W. Multiobjective Parameter Estimation Problems of Fermentation Processes Using a High Ethanol Tolerance Yeast. Chemical Engineering Science 55 (2000) 3685
38. Wang F.S., Su T.L., and Jang H.J. Hybrid Differential Evolution for Problems of Kinetic Parameter Estimation and Dynamic Optimization of an Ethanol Fermentation Process. Industrial Engineering Chemical Research 40 (2001) 2876
39. Wang F.S., and Lin K.J. Performance Analysis and Fuzzy Optimisation of a Two-Stage Fermentation Process with Cell Recycling Including an Extractor for Lactic Acid Production. Chemical Engineering Science 58 (2003) 3753