Analysis and Design of Metabolic Reaction Networks via Mixed-Integer Linear Optimization

AIChE Journal

Volumn 42, Issue 5, 1996, Pages 1277-1292

  Hatzimanikatis, Vassily ^a   Floudas, Christodoulos A ^b   Bailey, James E ^c  

^a California Institute of Technology   (United States)

^b Princeton University   (United States)

^c ETH ZURICH   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

ENZYMES; LINEAR PROGRAMMING; METABOLISM; OPTIMIZATION; PERFORMANCE; SYSTEMS ENGINEERING;

BIOPROCESS; METABOLIC CONTROL STRUCTURE; METABOLIC REACTION NETWORKS; MIXED INTEGER LINEAR OPTIMIZATION; PHENYLALANINE SELECTIVITY;

BIOTECHNOLOGY;

EID: 0030141280     PISSN: 00011541     EISSN: None     Source Type: Journal    
DOI: 10.1002/aic.690420509     Document Type: Article

References (34)

1. Bailey, J. E., "Toward a Science of Metabolic Engineering," Science, 252, 1668 (1991).
2. Cornish-Bowden, A., and M. L. Cardenas, eds., "Control of Metabolic Processes," NATO ASI Ser. A: Lifesciences, Vol. 190, Plenum Press, New York (1990).
3. Fell, D. A. "Metabolic Control Analysis - A Survey of its Theoretical and Experimental Development," Biochem. J., 152, 313 (1992).
4. Fredrickson, A. G., "Formulation of Structured Growth Models," Biotechnol. Bioeng., 28, 1481 (1976).
5. Floudas, C. A., Nonlinear and Mixed Integer Optimization: Fundamentals and Applications, Oxford Univ. Press, New York, in press (1995).
6. Gallazo, J. L., and J. E. Bailey, "Fermentation Pathway Kinetics and Metabolic Flux Control in Suspended and Immobilized Saccharomyces cerevisiae," Enzyme Microb. Technol., 12, 162 (1990).
7. Glover, F., "Improved Linear Programming Formulations of Nonlinear Integer Problems," Mgmt. Sci., 22, 445 (1975).
8. Hatzimanikatis, V., K. H. Lee, W. A. Renner, and J. E. Bailey, "A Mathematical Model for the G1/S Transition of the Mammalian Cell Cycle," Biotech. Lett., in press (1996).
9. Heinrich, R., H.-G. Holzhütter, and S. Schuster, "A Theoretical Approach to the Evolution and Structural Design of Enzymatic Networks," Bull. Math. Biol., 49, 539 (1987).
10. Heinrich, R., and T. A. Rapoport, "A Linear Steady-State Treatment of Enzymatic Chains," Eur. J. Biochem., 42, 89 (1974).
11. Joshi, A., and B. O. Palsson, "Metabolic Dynamics in the Human Red Cell: I. A Comprehensive Kinetic Model," J. Theor. Biol., 141, 515 (1989).
12. Kacser, H., and J. A. Burns, "The Control of Flux," Symp. Soc. Exp. Biol., 27, 65 (1973).
13. Katsumata, R., and M. Ikeda, "Hyperproduction of Tryptophan in Corynebacterium glutamicum by Pathway Engineering," Bio/Technol., 11, 921 (1993).
14. Lee, S. B., and J. E. Bailey, "A Mathematical Model for Lambda-dv Plasmid Replication - Analysis of Wild-Type Plasmid," Plasmid, 11, 151 (1984a).
15. Lee, S. L., and J. E. Bailey, "Genetically Structured Models for lac Promoter-Operation Function in the Escherichia coli Chromosome and in Multicopy Plasmids - lac Operator Function," Biotechnol. Bioeng., 26, 1327 (1984b).
16. Lee, S. L., and J. E. Bailey, "Genetically Structured Models for lac Promoter-Operation Function in the Escherichia coli Chromosome and in Multicopy Plasmids - lac Promoter Function," Biotechnol. Bioeng., 26, 1383 (1984c).
17. Majewski, R. A., and M. M. Domach, "Simple Constrained-Optimization View of Acetate Overflow in E. coli," Biotechnol. Bioeng., 35, 732 (1990).
18. Marr, A. G., "Growth Rate of Escherichia coli," Microbiol. Rev., 55, 316 (1991).
19. Petersen, C. C., "A Note on Transforming the Product of Variables to Linear Forms in Linear Programs," Working paper, Purdue Univ. (1971).
20. Psarris, P., and C. A. Floudas, "Improving Dynamic Operability in MIMO Systems with Time Delays," Chem. Eng. Sci., 45, 3505 (1990).
21. Ramkrishna, D., "A Cybernetic Respective of Microbial Growth," ACS Symp. Ser., 207, 151 (1983).
22. Reder, C., "Metabolic Control Theory: A Structural Approach," J. Theor. Biol., 135, 175 (1988).
23. Regan, L., D. L. Bogle, and P. Dunnill, "Simulation and Optimization of Metabolic Pathways," Comp. Chem. Eng., 17, 627 (1993).
24. Sanwal, B. D., M. Kapoor, and H. W. Duckworth, "The Regulation of Branched and Converging Pathways," Curr. Top. Cell. Regul., 3, 1 (1971).
25. Savageau, M. A., Biochemical Systems Analysis: A Study of Function and Design in Molecular Biology, Addison-Wesley, Reading, MA (1976).
26. Schlosser, P. M., and J. E. Bailey, "An Integrated Modelling-Experimental Strategy for the Analysis of Metabolic Pathways," Math. Biosci., 100, 87 (1990).
27. Schlosser, P. M., T. Holcomb, and J. E. Bailey, "Determining Metabolic Sensitivity Coefficients Directly from Experimental Data," Biotechnol. Bioeng., 41, 1027 (1993).
28. Schuster, S., and R. Heinrich, "Minimization of Intermediate Concentrations as a Suggested Optimality Principle for Biochemical Networks: I. Theoretical Analysis," J. Math. Biol., 29, 425 (1991).
29. Shuler, M. L, and M. M. Domach, "Mathematical Models of the Growth of Individual Cells - Tools for Testing Biochemical Mechanisms," ACS Symp. Ser., 207, 93 (1983).
30. Starbuck, C., and D. A. Lauffenburger, "Mathematical Model for the Effects of Epidermal Growth-Factor Receptor Trafficking Dynamics on Fibroblast Proliferation Responses," Biotech. Prog., 8, 132 (1992).
31. Stephanopoulos, G., and J. J. Vallino, "Network Rigidity and Metabolic Engineering in Metabolite Overproduction," Science, 252, 1675 (1991).
32. Torres, N. V., "Application of Transition Time of Metabolic Systems as a Criterion for Optimization of Metabolic Processes," Biotechnol. Bioeng., 44, 291 (1994).
33. Varma, A., and B. O. Palsson, "Metabolic Flux Balancing: Basic Concepts, Scientific and Practical Use," Bio/Technol., 12, 994 (1994).
34. Voit, E. O., "Optimization in Integrated Biochemical Systems," Biotechnol. Bioeng., 40, 572 (1992).