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Volumn 71, Issue 8, 2009, Pages 1851-1872

Sequential activation of metabolic pathways: A dynamic optimization approach

Author keywords

Dynamic optimization; Metabolic dynamics; Metabolic regulation

Indexed keywords

ENZYME;

EID: 70350400430     PISSN: 00928240     EISSN: 15229602     Source Type: Journal    
DOI: 10.1007/s11538-009-9427-5     Document Type: Article
Times cited : (36)

References (40)
  • 1
    • 0033665572 scopus 로고    scopus 로고
    • Extending the method of mathematically controlled comparison to include numerical comparisons
    • Alves, R., Savageau, M.A., 2000. Extending the method of mathematically controlled comparison to include numerical comparisons. Bioinformatics 16(9), 786-798.
    • (2000) Bioinformatics , vol.16 , Issue.9 , pp. 786-798
    • Alves, R.1    Savageau, M.A.2
  • 2
    • 19744368117 scopus 로고    scopus 로고
    • Dynamic optimization of bioprocesses: Efficient and robust numerical strategies
    • Banga, J., Balsa-Canto, E., Moles, C., Alonso, A., 2005. Dynamic optimization of bioprocesses: Efficient and robust numerical strategies. J. Biotechnol. 117, 407-419.
    • (2005) J. Biotechnol. , vol.117 , pp. 407-419
    • Banga, J.1    Balsa-Canto, E.2    Moles, C.3    Alonso, A.4
  • 3
    • 33748049452 scopus 로고    scopus 로고
    • Conservation of expression and sequence of metabolic genes is reflected by activity across metabolic states
    • Bilu, Y., Shlomi, T., Barkai, N., Ruppin, E., 2006. Conservation of expression and sequence of metabolic genes is reflected by activity across metabolic states. PLoS Comput. Biol. 2(8), 932-938.
    • (2006) PLoS Comput. Biol. , vol.2 , Issue.8 , pp. 932-938
    • Bilu, Y.1    Shlomi, T.2    Barkai, N.3    Ruppin, E.4
  • 4
    • 0026050621 scopus 로고
    • Total cell protein concentration as an evolutionary constraint on the metabolic control distribution in cells
    • Brown, G., 1991. Total cell protein concentration as an evolutionary constraint on the metabolic control distribution in cells. J. Theor. Biol. 153, 195-203.
    • (1991) J. Theor. Biol. , vol.153 , pp. 195-203
    • Brown, G.1
  • 5
    • 84988041993 scopus 로고    scopus 로고
    • Timing is everything
    • Campbell, N., 2004. Timing is everything. Nat. Rev. Genet. 5, 405.
    • (2004) Nat. Rev. Genet. , vol.5 , pp. 405
    • Campbell, N.1
  • 6
    • 18844380444 scopus 로고    scopus 로고
    • Robustness and fragility of Boolean models for genetic regulatory network
    • Chaves, M., Albert, R., Sontag, E., 2005. Robustness and fragility of Boolean models for genetic regulatory network. J. Theor. Biol. 235, 431-449.
    • (2005) J. Theor. Biol. , vol.235 , pp. 431-449
    • Chaves, M.1    Albert, R.2    Sontag, E.3
  • 9
    • 0030574071 scopus 로고    scopus 로고
    • Control analysis of unbranched enzymatic chains in states of maximal activity
    • Heinrich, R., Klipp, E., 1996. Control analysis of unbranched enzymatic chains in states of maximal activity. J. Theor. Biol. 182, 242-252.
    • (1996) J. Theor. Biol. , vol.182 , pp. 242-252
    • Heinrich, R.1    Klipp, E.2
  • 11
    • 0025923478 scopus 로고
    • Mathematical analysis of enzymatic reaction systems using optimization principles
    • Heinrich, R., Schuster, S., Holzhütter, H.G., 1991. Mathematical analysis of enzymatic reaction systems using optimization principles. Eur. J. Biochem. 201, 1-21.
    • (1991) Eur. J. Biochem. , vol.201 , pp. 1-21
    • Heinrich, R.1    Schuster, S.2    Holzhütter, H.G.3
  • 12
    • 3242795003 scopus 로고    scopus 로고
    • The principle of flux minimization and its application to estimate stationary fluxes in metabolic networks
    • Holzhütter, H.-G., 2004. The principle of flux minimization and its application to estimate stationary fluxes in metabolic networks. Eur. J. Biochem. 271, 2905-2922.
    • (2004) Eur. J. Biochem. , vol.271 , pp. 2905-2922
    • Holzhütter, H.-G.1
  • 13
    • 0037079023 scopus 로고    scopus 로고
    • Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
    • Ibarra, R., Edwards, J., Palsson, B., 2002. Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth. Nature 420, 186-189.
    • (2002) Nature , vol.420 , pp. 186-189
    • Ibarra, R.1    Edwards, J.2    Palsson, B.3
  • 14
  • 15
    • 0032729822 scopus 로고    scopus 로고
    • Competition for enzymes in metabolic pathways: Implications for optimal distributions of enzyme concentrations and for the distribution of flux control
    • Klipp, E., Heinrich, R., 1999. Competition for enzymes in metabolic pathways: Implications for optimal distributions of enzyme concentrations and for the distribution of flux control. Biosystems 54, 1-14.
    • (1999) Biosystems , vol.54 , pp. 1-14
    • Klipp, E.1    Heinrich, R.2
  • 16
    • 0036441029 scopus 로고    scopus 로고
    • Prediction of temporal gene expression: Metabolic optimization by re-distribution of enzyme activities
    • Klipp, E., Heinrich, R., Holzhütter, H.G., 2002. Prediction of temporal gene expression: Metabolic optimization by re-distribution of enzyme activities. Eur. J. Biochem. 269, 5406-5413.
    • (2002) Eur. J. Biochem. , vol.269 , pp. 5406-5413
    • Klipp, E.1    Heinrich, R.2    Holzhütter, H.G.3
  • 18
    • 33749651702 scopus 로고    scopus 로고
    • Time ordering of gene coexpression
    • Leng, X., Müller, H.-G., 2006. Time ordering of gene coexpression. Biostatistics 7(4), 569-584.
    • (2006) Biostatistics , vol.7 , Issue.4 , pp. 569-584
    • Leng, X.1    Müller, H.-G.2
  • 19
    • 0342901749 scopus 로고    scopus 로고
    • Generalization of the theory of transition times in metabolic pathways: A geometrical approach
    • Llorens, M., Nuno, J., Rodriguez, Y., Melendez-Hevia, E., Montero, F., 1999. Generalization of the theory of transition times in metabolic pathways: A geometrical approach. Biophys. J. 77, 22-36.
    • (1999) Biophys. J. , vol.77 , pp. 22-36
    • Llorens, M.1    Nuno, J.2    Rodriguez, Y.3    Melendez-Hevia, E.4    Montero, F.5
  • 20
    • 0036708443 scopus 로고    scopus 로고
    • Dynamic flux balance analysis of diauxic growth in Escherichia coli
    • Mahadevan, R., Edwards, J., Doyle, F., 2002. Dynamic flux balance analysis of diauxic growth in Escherichia coli. Biophys. J. 83, 1331-1340.
    • (2002) Biophys. J. , vol.83 , pp. 1331-1340
    • Mahadevan, R.1    Edwards, J.2    Doyle, F.3
  • 21
    • 0025317877 scopus 로고
    • A generalization of metabolic control analysis to conditions of no proportionality between activity and concentrations of enzymes
    • Meléndez-Hevia, E., Torres, N., Sicilia, J., 1990. A generalization of metabolic control analysis to conditions of no proportionality between activity and concentrations of enzymes. J. Theor. Biol. 142, 443-451.
    • (1990) J. Theor. Biol. , vol.142 , pp. 443-451
    • Meléndez-Hevia, E.1    Torres, N.2    Sicilia, J.3
  • 22
    • 34447557916 scopus 로고    scopus 로고
    • Principles of optimal network operation
    • Nielsen, J., 2007. Principles of optimal network operation. Mol. Syst. Biol. 3(126), 00-00.
    • (2007) Mol. Syst. Biol. , vol.3 , Issue.126 , pp. 00-00
    • Nielsen, J.1
  • 23
    • 38349120985 scopus 로고    scopus 로고
    • Dynamic change in promoter activation during lysine biosynthesis in Escherichia coli cells
    • Ou, J., Yamada, T., Nagahis, K., Hirasawa, T., Furusawa, C., Yomo, T., Shimizu, H., 2008. Dynamic change in promoter activation during lysine biosynthesis in Escherichia coli cells. Mol. Biosyst. 4, 128-134.
    • (2008) Mol. Biosyst. , vol.4 , pp. 128-134
    • Ou, J.1    Yamada, T.2    Nagahis, K.3    Hirasawa, T.4    Furusawa, C.5    Yomo, T.6    Shimizu, H.7
  • 26
    • 64849106540 scopus 로고    scopus 로고
    • PROPT-Matlab Optimal Control Software
    • 260 SE Bishop Blvd Ste E, Pullman, WA 99163, USA, February 2009
    • Rutquist, P., Edvall, M., (2009) PROPT-Matlab Optimal Control Software, Tomlab Optimization Inc., 260 SE Bishop Blvd Ste E, Pullman, WA 99163, USA, February 2009.
    • (2009) Tomlab Optimization Inc.
    • Rutquist, P.1    Edvall, M.2
  • 27
    • 0016201107 scopus 로고
    • Optimal design of feedback control by inhibition: Steady state considerations
    • Savageau, M.A., 1974. Optimal design of feedback control by inhibition: Steady state considerations. J. Mol. Evol. 4, 139-156.
    • (1974) J. Mol. Evol. , vol.4 , pp. 139-156
    • Savageau, M.A.1
  • 28
    • 0016788494 scopus 로고
    • Optimal design of feedback control by inhibition: Dynamic considerations
    • Savageau, M.A., 1975. Optimal design of feedback control by inhibition: Dynamic considerations. J. Mol. Evol. 5(3), 199-222.
    • (1975) J. Mol. Evol. , vol.5 , Issue.3 , pp. 199-222
    • Savageau, M.A.1
  • 30
    • 0021776306 scopus 로고
    • A theory of alternative designs for biochemical control systems
    • Savageau, M.A., 1985. A theory of alternative designs for biochemical control systems. Biomed. Biochim. Acta 44(6), 875-880.
    • (1985) Biomed. Biochim. Acta , vol.44 , Issue.6 , pp. 875-880
    • Savageau, M.A.1
  • 31
    • 34447523907 scopus 로고    scopus 로고
    • Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
    • Schuetz, R., Kuepfer, L., Sauer, U., 2007. Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli. Mol. Syst. Biol. 3, 119.
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 119
    • Schuetz, R.1    Kuepfer, L.2    Sauer, U.3
  • 32
    • 43449132092 scopus 로고    scopus 로고
    • Is maximization of molar yield in metabolic networks favoured by evolution?
    • Schuster, S., Pfeiffer, T., Fell, D., 2008. Is maximization of molar yield in metabolic networks favoured by evolution? J. Theor. Biol. 252(3), 497-504.
    • (2008) J. Theor. Biol. , vol.252 , Issue.3 , pp. 497-504
    • Schuster, S.1    Pfeiffer, T.2    Fell, D.3
  • 33
    • 0028470795 scopus 로고
    • Application of the transition time of metabolic systems as a criterion for optimization of metabolic processes
    • Torres, N., 1994. Application of the transition time of metabolic systems as a criterion for optimization of metabolic processes. Biotechnol. Bioeng. 44, 291-296.
    • (1994) Biotechnol. Bioeng. , vol.44 , pp. 291-296
    • Torres, N.1
  • 35
    • 33846067658 scopus 로고    scopus 로고
    • DFBA-LQR: An optimal control approach to flux balance analysis
    • Uygun, K., Matthew, H., Huang, Y., 2006. DFBA-LQR: An optimal control approach to flux balance analysis. Ind. Eng. Chem. Res. 45, 8554-8564.
    • (2006) Ind. Eng. Chem. Res. , vol.45 , pp. 8554-8564
    • Uygun, K.1    Matthew, H.2    Huang, Y.3
  • 36
    • 0033926217 scopus 로고    scopus 로고
    • Dynamic optimal control of homeostasis: An integrative systems approach for modeling of the central nitrogen metabolism in Saccharomyces cerevisiae
    • van Riel, N., Giuseppin, M., Verrips, C., 2000. Dynamic optimal control of homeostasis: An integrative systems approach for modeling of the central nitrogen metabolism in Saccharomyces cerevisiae. Metab. Eng. 2, 14-33.
    • (2000) Metab. Eng. , vol.2 , pp. 14-33
    • van Riel, N.1    Giuseppin, M.2    Verrips, C.3
  • 37
    • 0028108519 scopus 로고
    • Metabolic flux balancing-basic concepts, scientific and practical use
    • Varma, A., Palsson, B., 1994. Metabolic flux balancing-basic concepts, scientific and practical use. Bio-Technology 12(10), 994-998.
    • (1994) Bio-Technology , vol.12 , Issue.10 , pp. 994-998
    • Varma, A.1    Palsson, B.2
  • 38
    • 0033005128 scopus 로고    scopus 로고
    • Metabolic engineering from a cybernetic perspective. 1. Theoretical preliminaries
    • Varner, J., Ramkrishna, D., 1999. Metabolic engineering from a cybernetic perspective. 1. Theoretical preliminaries. Biotechnol. Prog. 15, 407-425.
    • (1999) Biotechnol. Prog. , vol.15 , pp. 407-425
    • Varner, J.1    Ramkrishna, D.2
  • 39
    • 0037899231 scopus 로고    scopus 로고
    • Multicriteria optimization of biochemical systems by linear programming: Application to production of ethanol by Saccharomyces cerevisiae
    • Vera, J., de Atauri, P., Cascante, M., Torres, N., 2003. Multicriteria optimization of biochemical systems by linear programming: Application to production of ethanol by Saccharomyces cerevisiae. Biotechnol. Bioeng. 83, 335-343.
    • (2003) Biotechnol. Bioeng. , vol.83 , pp. 335-343
    • Vera, J.1    de Atauri, P.2    Cascante, M.3    Torres, N.4


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