Metabolic regulation is sufficient for global and robust coordination of glucose uptake, catabolism, energy production and growth in Escherichia coli

Development of an accurate kinetic model for the central carbon metabolism of Escherichia coli

(2016) Nusrat Jahan et al.   Microbial Cell Factories

Fitting Transporter Activities to Cellular Drug Concentrations and Fluxes: Why the Bumblebee Can Fly

(2015) Pedro Mendes et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

Sampling of intracellular metabolites for stationary and non-stationary 13C metabolic flux analysis in Escherichia coli

(2014) Pierre Millard et al.   ANALYTICAL BIOCHEMISTRY

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

(2014) Ali Khodayari et al.   METABOLIC ENGINEERING

k-OptForce: Integrating Kinetics with Flux Balance Analysis for Strain Design

(2014) Anupam Chowdhury et al.   PLoS Computational Biology

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

(2013) Anirikh Chakrabarti et al.   Biotechnology Journal

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

(2013) Kieran Smallbone et al.   FEBS LETTERS

Modelling the Krebs cycle and oxidative phosphorylation

(2013) Kalyani Korla et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Modification of glucose import capacity in Escherichia coli: physiologic consequences and utility for improving DNA vaccine production

(2013) Laura G Fuentes et al.   Microbial Cell Factories

Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis

(2013) V. Chubukov et al.   Molecular Systems Biology

Pyrimidine homeostasis is accomplished by directed overflow metabolism

(2013) Marshall Louis Reaves et al.   NATURE

The Carbon Storage Regulator (Csr) System Exerts a Nutrient-Specific Control over Central Metabolism in Escherichia coli Strain Nissle 1917

(2013) Olga Revelles et al.   PLoS One

Systematic Construction of Kinetic Models from Genome-Scale Metabolic Networks

(2013) Natalie J. Stanford et al.   PLoS One

What Can We Learn from Global Sensitivity Analysis of Biochemical Systems?

(2013) Edward Kent et al.   PLoS One

Functioning of a metabolic flux sensor in Escherichia coli

(2013) K. Kochanowski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Glycolytic strategy as a tradeoff between energy yield and protein cost

(2013) A. Flamholz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Experimental evidence suggests the existence of evolutionary conserved global operation principles governing microbial metabolism

(2013) Sergio Bordel   Scientific Reports

Overexpression of Genes Encoding Glycolytic Enzymes in Corynebacterium glutamicum Enhances Glucose Metabolism and Alanine Production under Oxygen Deprivation Conditions

(2012) Shogo Yamamoto et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Condor-COPASI: high-throughput computing for biochemical networks

(2012) Edward Kent et al.   BMC Systems Biology

A Whole-Cell Computational Model Predicts Phenotype from Genotype

(2012) Jonathan R. Karr et al.   CELL

Kinetic modelling of central carbon metabolism inEscherichia coli

(2012) Kirill Peskov et al.   FEBS Journal

Multidimensional Optimality of Microbial Metabolism

(2012) R. Schuetz et al.   SCIENCE

Shrinking the Metabolic Solution Space Using Experimental Datasets

(2012) Jennifer L. Reed   PLoS Computational Biology

Escherichia coli responds with a rapid and large change in growth rate upon a shift from glucose-limited to glucose-excess conditions

(2011) Hilal Taymaz-Nikerel et al.   METABOLIC ENGINEERING

Large-scale 13C-flux analysis reveals distinct transcriptional control of respiratory and fermentative metabolism in Escherichia coli

(2011) B. R. B. Haverkorn van Rijsewijk et al.   Molecular Systems Biology

Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs

(2011) F. Wessely et al.   Molecular Systems Biology

Aerobic respiratory chain of Escherichia coli is not allowed to work in fully uncoupled mode

(2011) V. B. Borisov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-derived minimal metabolic models for Escherichia coli MG1655 with estimated in vivo respiratory ATP stoichiometry

(2010) Hilal Taymaz-Nikerel et al.   BIOTECHNOLOGY AND BIOENGINEERING

Further developments towards a genome-scale metabolic model of yeast

(2010) Paul D Dobson et al.   BMC Systems Biology

Analyzing metabolic variations in different bacterial strains, historical perspectives and current trends – example E. coli

(2010) Joseph Shiloach et al.   CURRENT OPINION IN BIOTECHNOLOGY

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

(2010) Tuty Kadir et al.   Microbial Cell Factories

Unraveling condition-dependent networks of transcription factors that control metabolic pathway activity in yeast

(2010) Sarah-Maria Fendt et al.   Molecular Systems Biology

Bacterial adaptation through distributed sensing of metabolic fluxes

(2010) Oliver Kotte et al.   Molecular Systems Biology

Five hard truths for synthetic biology

(2010) Roberta Kwok   NATURE

The Carbon Assimilation Network in Escherichia coli Is Densely Connected and Largely Sign-Determined by Directions of Metabolic Fluxes

(2010) Valentina Baldazzi et al.   PLoS Computational Biology

Metabolomics-driven quantitative analysis of ammonia assimilation in E. coli

(2009) Jie Yuan et al.   Molecular Systems Biology

The Systems Biology Graphical Notation

(2009) Nicolas Le Novère et al.   NATURE BIOTECHNOLOGY

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

(2009) Bryson D Bennett et al.   Nature Chemical Biology

Development and application of a differential method for reliable metabolome analysis in Escherichia coli

(2008) Hilal Taymaz-Nikerel et al.   ANALYTICAL BIOCHEMISTRY

Cyclic AMP-Dependent Catabolite Repression Is the Dominant Control Mechanism of Metabolic Fluxes under Glucose Limitation in Escherichia coli

(2008) A. Nanchen et al.   JOURNAL OF BACTERIOLOGY

Computer-aided rational design of the phosphotransferase system for enhanced glucose uptake in Escherichia coli

(2008) Yousuke Nishio et al.   Molecular Systems Biology

The thermodynamic H+/ATP ratios of the H+-ATPsynthases from chloroplasts and Escherichia coli

(2008) S. Steigmiller et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA