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Title
Using optimal control to understand complex metabolic pathways
Authors
Keywords
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Journal
BMC BIOINFORMATICS
Volume 21, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2020-10-21
DOI
10.1186/s12859-020-03808-8
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Note: Only part of the references are listed.- Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0
- (2019) Laurent Heirendt et al. Nature Protocols
- Optimal Decoding of Cellular Identities in a Genetic Network
- (2019) Mariela D. Petkova et al. CELL
- Control theory in biology and medicine
- (2019) Peter J. Thomas et al. BIOLOGICAL CYBERNETICS
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- (2019) Jan Ewald et al. CELLULAR AND MOLECULAR LIFE SCIENCES
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- (2019) Jonathan Strutz et al. CURRENT OPINION IN BIOTECHNOLOGY
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- (2018) Nikolaos Tsiantis et al. BIOINFORMATICS
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- (2018) Lorenz T. Biegler COMPUTERS & CHEMICAL ENGINEERING
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- (2018) Lukas Andreas Widmer et al. CURRENT OPINION IN BIOTECHNOLOGY
- Control Theory for Synthetic Biology: Recent Advances in System Characterization, Control Design, and Controller Implementation for Synthetic Biology
- (2018) Victoria Hsiao et al. IEEE CONTROL SYSTEMS MAGAZINE
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- (2018) Mahdi Imani et al. IEEE-ACM Transactions on Computational Biology and Bioinformatics
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- (2018) Ivan Yegorov et al. JOURNAL OF MATHEMATICAL BIOLOGY
- Influence of enzyme production dynamics on the optimal control of a linear unbranched chemical process
- (2018) L. Bayón et al. JOURNAL OF MATHEMATICAL CHEMISTRY
- Optimal control of Boolean control networks with average cost: A policy iteration approach
- (2018) Yuhu Wu et al. AUTOMATICA
- Global optimization in Hilbert space
- (2017) Boris Houska et al. MATHEMATICAL PROGRAMMING
- Global optimal control with the direct multiple shooting method
- (2017) H. Diedam et al. OPTIMAL CONTROL APPLICATIONS & METHODS
- Cellular trade-offs and optimal resource allocation during cyanobacterial diurnal growth
- (2017) Alexandra-M. Reimers et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Automated Design Framework for Synthetic Biology Exploiting Pareto Optimality
- (2017) Irene Otero-Muras et al. ACS Synthetic Biology
- Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism
- (2017) Jan Ewald et al. PLoS Computational Biology
- AMIGO2, a toolbox for dynamic modeling, optimization and control in systems biology
- (2016) Eva Balsa-Canto et al. BIOINFORMATICS
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- (2016) Philippe Nimmegeers et al. BMC Systems Biology
- Model calibration and uncertainty analysis in signaling networks
- (2016) Tim Heinemann et al. CURRENT OPINION IN BIOTECHNOLOGY
- Tradeoffs in adapting biological systems
- (2016) Rajat Bhatnagar et al. EUROPEAN JOURNAL OF CONTROL
- Synthetic biology and regulatory networks: where metabolic systems biology meets control engineering
- (2016) Fei He et al. Journal of the Royal Society Interface
- Control theory meets synthetic biology
- (2016) Domitilla Del Vecchio et al. Journal of the Royal Society Interface
- Dynamical Allocation of Cellular Resources as an Optimal Control Problem: Novel Insights into Microbial Growth Strategies
- (2016) Nils Giordano et al. PLoS Computational Biology
- Constructing kinetic models of metabolism at genome-scales: A review
- (2015) Shyam Srinivasan et al. Biotechnology Journal
- Optimal programs of pathway control: dissecting the influence of pathway topology and feedback inhibition on pathway regulation
- (2015) Gundián M de Hijas-Liste et al. BMC BIOINFORMATICS
- Trade-Offs in Delayed Information Transmission in Biochemical Networks
- (2015) F. Mancini et al. JOURNAL OF STATISTICAL PHYSICS
- Dynamic optimization of metabolic networks coupled with gene expression
- (2015) Steffen Waldherr et al. JOURNAL OF THEORETICAL BIOLOGY
- Quantitative and logic modelling of molecular and gene networks
- (2015) Nicolas Le Novère NATURE REVIEWS GENETICS
- Mechanistic links between cellular trade-offs, gene expression, and growth
- (2015) Andrea Y. Weiße et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Understanding carbon catabolite repression in Escherichia coli using quantitative models
- (2015) A. Kremling et al. TRENDS IN MICROBIOLOGY
- Constructing kinetic models of metabolism at genome-scales: A review
- (2015) Shyam Srinivasan et al. Biotechnology Journal
- Global dynamic optimization approach to predict activation in metabolic pathways
- (2014) Gundián M de Hijas-Liste et al. BMC Systems Biology
- Trade-offs
- (2014) Theodore Garland CURRENT BIOLOGY
- Kinetic models in industrial biotechnology – Improving cell factory performance
- (2014) Joachim Almquist et al. METABOLIC ENGINEERING
- Why model?
- (2014) Olaf Wolkenhauer Frontiers in Physiology
- Optimality in evolution: new insights from synthetic biology
- (2013) Marjon GJ de Vos et al. CURRENT OPINION IN BIOTECHNOLOGY
- Optimal control of a linear unbranched chemical process with $$n$$ n steps: the quasi-analytical solution
- (2013) L. Bayón et al. JOURNAL OF MATHEMATICAL CHEMISTRY
- Branch-and-Lift Algorithm for Deterministic Global Optimization in Nonlinear Optimal Control
- (2013) Boris Houska et al. JOURNAL OF OPTIMIZATION THEORY AND APPLICATIONS
- Optimal control of gene expression for fast proteome adaptation to environmental change
- (2013) M. Y. Pavlov et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Dynamic optimization identifies optimal programmes for pathway regulation in prokaryotes
- (2013) Martin Bartl et al. Nature Communications
- Evolutionary Tradeoffs between Economy and Effectiveness in Biological Homeostasis Systems
- (2013) Pablo Szekely et al. PLoS Computational Biology
- Comparative multi-goal tradeoffs in systems engineering of microbial metabolism
- (2012) David Byrne et al. BMC Systems Biology
- Optimality in the Development of Intestinal Crypts
- (2012) Shalev Itzkovitz et al. CELL
- Engineering and control of biological systems: A new way to tackle complex diseases
- (2012) Filippo Menolascina et al. FEBS LETTERS
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- (2012) E. Trélat JOURNAL OF OPTIMIZATION THEORY AND APPLICATIONS
- Synthetic gene circuits for metabolic control: design trade-offs and constraints
- (2012) D. A. Oyarzun et al. Journal of the Royal Society Interface
- Exploration of trade-offs between steady-state and dynamic properties in signaling cycles
- (2012) A Radivojevic et al. PHYSICAL BIOLOGY
- Multi-Criteria Optimization of Regulation in Metabolic Networks
- (2012) Clara Higuera et al. PLoS One
- Multidimensional Optimality of Microbial Metabolism
- (2012) R. Schuetz et al. SCIENCE
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- (2011) Frank J. Poelwijk et al. CELL
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- (2011) D.A. Oyarzún IET Systems Biology
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- (2011) Arthur Sherman JOURNAL OF GENERAL PHYSIOLOGY
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- (2011) Bruce A. Conway JOURNAL OF OPTIMIZATION THEORY AND APPLICATIONS
- Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs
- (2011) F. Wessely et al. Molecular Systems Biology
- Computational optimization and biological evolution: Figure 1
- (2010) Igor Goryanin BIOCHEMICAL SOCIETY TRANSACTIONS
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- (2010) W. W. Chen et al. GENES & DEVELOPMENT
- The trade-off between rate and yield in the design of microbial metabolism
- (2010) S. A. FRANK JOURNAL OF EVOLUTIONARY BIOLOGY
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- (2009) Diego A. Oyarzún et al. BULLETIN OF MATHEMATICAL BIOLOGY
- Dynamic Optimization of Nonlinear Processes with an Enhanced Scatter Search Method
- (2009) Jose A. Egea et al. INDUSTRIAL & ENGINEERING CHEMISTRY RESEARCH
- Shifts in growth strategies reflect tradeoffs in cellular economics
- (2009) Douwe Molenaar et al. Molecular Systems Biology
- The rôle of control and system theory in systems biology
- (2008) Peter Wellstead et al. ANNUAL REVIEWS IN CONTROL
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- (2008) Julio R Banga BMC Systems Biology
- Genetic algorithms applied to the solution of hybrid optimal control problems in astrodynamics
- (2008) Bradley J. Wall et al. JOURNAL OF GLOBAL OPTIMIZATION
- Activity motifs reveal principles of timing in transcriptional control of the yeast metabolic network
- (2008) Gal Chechik et al. NATURE BIOTECHNOLOGY
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