(Q30831082)

26 June 2017

A kinetic model of Escherichia coli core metabolism satisfying multiple sets of mutant flux data (English)

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26 June 2017

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Costas D Maranas

4

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author name string

Ali Khodayari

series ordinal

1

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26 June 2017

Ali R Zomorrodi

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2

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26 June 2017

James C Liao

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3

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26 June 2017

language of work or name

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10 June 2014

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26 June 2017

Metabolic Engineering

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26 June 2017

25

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26 June 2017

50-62

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Metabolic flux analysis of pykF gene knockout Escherichia coli based on 13C-labeling experiments together with measurements of enzyme activities and intracellular metabolite concentrations

26 June 2017

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Global organization of metabolic fluxes in the bacterium Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Tuning genetic control through promoter engineering

7 January 2021

1 reference

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An iterative identification procedure for dynamic modeling of biochemical networks

7 January 2021

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Engineering stability in gene networks by autoregulation

7 January 2021

1 reference

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Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli

7 January 2021

1 reference

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Large-scale 13C-flux analysis reveals mechanistic principles of metabolic network robustness to null mutations in yeast

7 January 2021

1 reference

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Towards kinetic modeling of genome-scale metabolic networks without sacrificing stoichiometric, thermodynamic and physiological constraints.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Dynamic modeling of the central carbon metabolism of Escherichia coli.

7 January 2021

1 reference

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A kinetic model describes metabolic response to perturbations and distribution of flux control in the benzenoid network of Petunia hybrida

7 January 2021

1 reference

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Ensemble modeling for strain development of L-lysine-producing Escherichia coli

7 January 2021

1 reference

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Hybrid dynamic modeling of Escherichia coli central metabolic network combining Michaelis-Menten and approximate kinetic equations.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Regulation of gene expression in flux balance models of metabolism

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Ensemble modeling of hepatic fatty acid metabolism with a synthetic glyoxylate shunt

7 January 2021

1 reference

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Modeling metabolic networks in C. glutamicum: a comparison of rate laws in combination with various parameter optimization strategies

7 January 2021

1 reference

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k-Cone analysis: determining all candidate values for kinetic parameters on a network scale

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information

7 January 2021

1 reference

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System estimation from metabolic time-series data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

The stability and robustness of metabolic states: identifying stabilizing sites in metabolic networks

7 January 2021

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7 January 2021

1 reference

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Analysis and design of metabolic reaction networks via mixed-integer linear optimization

7 January 2021

1 reference

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Application of mathematical tools for metabolic design of microbial ethanol production

7 January 2021

1 reference

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Approximative kinetic formats used in metabolic network modeling

7 January 2021

1 reference

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Thermodynamics-based metabolic flux analysis

7 January 2021

1 reference

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A reliable simulator for dynamic flux balance analysis

7 January 2021

1 reference

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Prediction and measurement of an autoregulatory genetic module

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Multiple high-throughput analyses monitor the response of E. coli to perturbations

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Mass action stoichiometric simulation models: incorporating kinetics and regulation into stoichiometric models

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Ensemble kinetic modeling of metabolic networks from dynamic metabolic profiles

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Metabolic modelling in the development of cell factories by synthetic biology

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

The EcoCyc and MetaCyc databases

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Environments that induce synthetic microbial ecosystems

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Ensemble modeling of cancer metabolism

7 January 2021

1 reference

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Recent advances in reconstruction and applications of genome-scale metabolic models

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Biochemical networks with uncertain parameters.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data

7 January 2021

1 reference

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The effects of alternate optimal solutions in constraint-based genome-scale metabolic models

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Production of biofuels and biochemicals: in need of an ORACLE.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Modeling of uncertainties in biochemical reactions.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Parameter estimation in biochemical pathways: a comparison of global optimization methods

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Metabolic control analysis of biochemical pathways based on a thermokinetic description of reaction rates

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Kinetic modelling of central carbon metabolism in Escherichia coli

7 January 2021

1 reference

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Steady-state global optimization of metabolic non-linear dynamic models through recasting into power-law canonical models

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Thirteen years of building constraint-based in silico models of Escherichia coli

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Ensemble modeling for aromatic production in Escherichia coli

7 January 2021

1 reference

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Genome-scale metabolic modeling of a clostridial co-culture for consolidated bioprocessing

7 January 2021

1 reference

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Biochemical systems analysis. 3. Dynamic solutions using a power-law approximation

7 January 2021

1 reference

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Use of randomized sampling for analysis of metabolic networks

7 January 2021

1 reference

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BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: new options and contents in BRENDA.

7 January 2021

1 reference

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Kinetic modelling of phospholipid synthesis in Plasmodium knowlesi unravels crucial steps and relative importance of multiple pathways

7 January 2021

1 reference

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A genome-scale computational study of the interplay between transcriptional regulation and metabolism

7 January 2021

1 reference

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Something from nothing: bridging the gap between constraint-based and kinetic modelling.

7 January 2021

1 reference

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Towards a genome-scale kinetic model of cellular metabolism

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes

7 January 2021

1 reference

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Cooperativity and saturation in biochemical networks: a saturable formalism using Taylor series approximations.

7 January 2021

1 reference

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Systematic construction of kinetic models from genome-scale metabolic networks

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Structural kinetic modeling of metabolic networks

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Metabolic modeling of a mutualistic microbial community.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Metabolic ensemble modeling for strain engineers

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

In vivo analysis of glucose-induced fast changes in yeast adenine nucleotide pool applying a rapid sampling technique

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae : I. Experimental observations

7 January 2021

1 reference

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Parameter optimization and sensitivity analysis for large kinetic models using a real-coded genetic algorithm.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Ensemble modeling of metabolic networks

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Dynamic modeling of Escherichia coli metabolic and regulatory systems for amino-acid production.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

In vivo dynamics of the pentose phosphate pathway in Saccharomyces cerevisiae.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Dynamic simulation and metabolic re-design of a branched pathway using linlog kinetics.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Metabolome, transcriptome and metabolic flux analysis of arabinose fermentation by engineered Saccharomyces cerevisiae.

7 January 2021

1 reference

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Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA.

7 January 2021

1 reference

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Efficient characterization of high-dimensional parameter spaces for systems biology.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

The design of long-term effective uranium bioremediation strategy using a community metabolic model.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

d-OptCom: Dynamic multi-level and multi-objective metabolic modeling of microbial communities

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

OptCom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities

7 January 2021

1 reference

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Optimization-driven identification of genetic perturbations accelerates the convergence of model parameters in ensemble modeling of metabolic networks

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMBEN.2014.05.014

10.1016/J.YMBEN.2014.05.014

7 January 2021

Identifiers

DOI

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26 June 2017

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