Optimal control of bacterial growth for the maximization of metabolite production
暂无分享,去创建一个
Jean-Luc Gouzé | Ivan Yegorov | Hidde de Jong | Francis Mairet | J. Gouzé | H. de Jong | I. Yegorov | F. Mairet | Hidde de Jong
[1] Pablo A. Iglesias,et al. Control Theory and Systems Biology , 2009 .
[2] M. Ehrenberg,et al. Optimal control of gene expression for fast proteome adaptation to environmental change , 2013, Proceedings of the National Academy of Sciences.
[3] D. Fell,et al. Is maximization of molar yield in metabolic networks favoured by evolution? , 2008, Journal of theoretical biology.
[4] Arthur L. Koch. Why can't a cell grow infinitely fast? , 1988 .
[5] Frank J. Poelwijk,et al. Tradeoffs and Optimality in the Evolution of Gene Regulation , 2011, Cell.
[6] Eduardo D. Sontag,et al. Molecular Systems Biology and Control , 2005, Eur. J. Control.
[7] R. Mosteller,et al. Metabolism of individual proteins in exponentially growing Escherichia coli. , 1980, The Journal of biological chemistry.
[8] Diego A. Oyarzún,et al. Synthetic gene circuits for metabolic control: design trade-offs and constraints , 2013, Journal of The Royal Society Interface.
[9] M. Khammash,et al. Automated optogenetic feedback control for precise and robust regulation of gene expression and cell growth , 2016, Nature Communications.
[10] Jean-Luc Gouzé,et al. Optimal feedback strategies for bacterial growth with degradation, recycling, and effect of temperature , 2018 .
[11] F. Johnson,et al. The growth rate of E. coli in relation to temperature, quinine and coenzyme. , 1946, Journal of cellular and comparative physiology.
[12] John C. Doyle,et al. Surviving heat shock: control strategies for robustness and performance. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[13] Yu. S. Ledyaev,et al. Nonsmooth analysis and control theory , 1998 .
[14] H. Schättler,et al. Geometric Optimal Control , 2012 .
[15] Ch. Venkateswarlu,et al. Advances in monitoring and state estimation of bioreactors , 2004 .
[16] Jean-Luc Gouzé,et al. Exact control of genetic networks in a qualitative framework: The bistable switch example , 2011, Autom..
[17] Ellina Grigorieva,et al. Optimal control of a nonlinear model of economic growth , 2007 .
[18] V. F. Borisov,et al. Singular Optimal Regimes in Problems of Mathematical Economics , 2005 .
[19] Uri Alon,et al. Cost–benefit theory and optimal design of gene regulation functions , 2007, Physical biology.
[20] Colin W. Clark,et al. Mathematical Bioeconomics: The Optimal Management of Renewable Resources. , 1993 .
[21] L. S. Pontryagin,et al. Mathematical Theory of Optimal Processes , 1962 .
[22] Frédéric Grognard,et al. Optimal resource allocation for biotrophic plant pathogens , 2017 .
[23] Alexander S. Bratus,et al. Synthesis of Optimal Control in a Mathematical Model of Economic Growth under R&D Investments , 2015 .
[24] T. Hwa,et al. Interdependence of Cell Growth and Gene Expression: Origins and Consequences , 2010, Science.
[25] P. Lindahl,et al. Whole-cell modeling framework in which biochemical dynamics impact aspects of cellular geometry. , 2007, Journal of theoretical biology.
[26] H. Sauro. Control and regulation of pathways via negative feedback , 2017, Journal of The Royal Society Interface.
[27] N. Markley. Principles of Differential Equations: Markley/Principles , 2004 .
[28] F. Bruggeman,et al. How fast-growing bacteria robustly tune their ribosome concentration to approximate growth-rate maximization , 2015, The FEBS journal.
[29] Vladimir Borisov,et al. Theory of Chattering Control , 1994 .
[30] Gülnur Birol,et al. Batch Fermentation: Modeling: Monitoring, and Control , 2003 .
[31] G. Williams,et al. The relative rates of protein synthesis and degradation in a growing culture of Escherichia coli. , 1980, The Journal of biological chemistry.
[32] B. Teusink,et al. Shifts in growth strategies reflect tradeoffs in cellular economics , 2009, Molecular systems biology.
[33] W. R. Cluett,et al. Dynamic metabolic engineering for increasing bioprocess productivity. , 2008, Metabolic engineering.
[34] Chung-Yen Lin,et al. cytoHubba: identifying hub objects and sub-networks from complex interactome , 2014, BMC Systems Biology.
[35] Jean-Luc Gouzé,et al. Optimal resource allocation for bacterial growth with degradation , 2017 .
[36] Eugenio Cinquemani,et al. Mathematical modelling of microbes: metabolism, gene expression and growth , 2017, Journal of The Royal Society Interface.
[37] U. Sauer,et al. Coordination of microbial metabolism , 2014, Nature Reviews Microbiology.
[38] M. I. Zelikin,et al. Theory of Chattering Control: with applications to Astronautics, Robotics, Economics, and Engineering , 1994 .
[39] Eva Balsa-Canto,et al. Global dynamic optimization approach to predict activation in metabolic pathways , 2014, BMC Systems Biology.
[40] Jean-Luc Gouzé,et al. Dynamical Allocation of Cellular Resources as an Optimal Control Problem: Novel Insights into Microbial Growth Strategies , 2016, PLoS Comput. Biol..
[41] T. Hwa,et al. Emergence of robust growth laws from optimal regulation of ribosome synthesis , 2014, Molecular systems biology.
[42] J. Trevors,et al. Survival of Escherichia coli in the environment: fundamental and public health aspects , 2011, The ISME Journal.
[43] Frederick C. Neidhardt,et al. Effect of Temperature on In Vivo Protein Synthetic Capacity in Escherichia coli , 1998, Journal of bacteriology.
[44] N. Markley. Principles of differential equations , 2004 .
[45] Ludovic Mailleret,et al. OPTIMAL LIFE‐HISTORY STRATEGIES IN SEASONAL CONSUMER‐RESOURCE DYNAMICS , 2011, Evolution; international journal of organic evolution.
[46] Julio R. Banga,et al. Optimization in computational systems biology , 2008, BMC Systems Biology.
[47] Wei Suong Teo,et al. A Two-Layer Gene Circuit for Decoupling Cell Growth from Metabolite Production. , 2016, Cell systems.
[48] Ahmad S. Khalil,et al. Synthetic biology: applications come of age , 2010, Nature Reviews Genetics.
[49] Hugo A. van den Berg,et al. Optimal allocation between nutrient uptake and growth in a microbial trichome , 1998 .
[50] D. Dochain,et al. On-Line Estimation and Adaptive Control of Bioreactors , 2013 .
[51] D. Oyarzún,et al. Dynamic optimization of metabolic networks coupled with gene expression. , 2013, Journal of theoretical biology.
[52] Johannes Geiselmann,et al. A synthetic growth switch based on controlled expression of RNA polymerase , 2015, Molecular systems biology.
[53] M. Chyba,et al. Singular Trajectories and Their Role in Control Theory , 2003, IEEE Transactions on Automatic Control.
[54] F. Fages,et al. Long-term model predictive control of gene expression at the population and single-cell levels , 2012, Proceedings of the National Academy of Sciences.
[55] U. Sauer,et al. Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli , 2007, Molecular systems biology.
[56] Christoph Kaleta,et al. Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism , 2017, PLoS Comput. Biol..
[57] Eva Balsa-Canto,et al. Dynamic optimization of bioprocesses: efficient and robust numerical strategies. , 2005, Journal of biotechnology.
[58] X. Zhou,et al. Stochastic Controls: Hamiltonian Systems and HJB Equations , 1999 .
[59] C. Hinshelwood,et al. 136. On the chemical kinetics of autosynthetic systems , 1952 .
[60] P. Swain,et al. Mechanistic links between cellular trade-offs, gene expression, and growth , 2015, Proceedings of the National Academy of Sciences.
[61] G. Stephanopoulos,et al. Metabolic Engineering: Principles And Methodologies , 1998 .
[62] Diego di Bernardo,et al. Automatic Control of Gene Expression in Mammalian Cells. , 2016, ACS synthetic biology.
[63] Yuh-tai Ju. SINGULAR OPTIMAL CONTROL , 1980 .
[64] Tom Ellis,et al. Sensing the Right Time to Be Productive. , 2016, Cell systems.
[65] John T. Workman,et al. Optimal Control Applied to Biological Models , 2007 .
[66] Johannes Geiselmann,et al. Resource Reallocation in Bacteria by Reengineering the Gene Expression Machinery. , 2017, Trends in microbiology.
[67] J. Doyle,et al. Robust perfect adaptation in bacterial chemotaxis through integral feedback control. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[68] Jeffrey J. Tabor,et al. Optogenetic characterization methods overcome key challenges in synthetic and systems biology. , 2014, Nature chemical biology.
[69] Michael A. Savageau,et al. Escherichia coli Habitats, Cell Types, and Molecular Mechanisms of Gene Control , 1983, The American Naturalist.
[70] Lamberto Cesari,et al. Optimization-Theory And Applications , 1983 .
[71] P. Dennis,et al. Modulation of Chemical Composition and Other Parameters of the Cell at Different Exponential Growth Rates , 2008, EcoSal Plus.
[72] Domitilla Del Vecchio,et al. Control theory meets synthetic biology , 2016, Journal of The Royal Society Interface.
[73] Nikolaos Anesiadis,et al. Engineering metabolism through dynamic control. , 2015, Current opinion in biotechnology.