Related references
Note: Only part of the references are listed.COBRApy: COnstraints-Based Reconstruction and Analysis for Python
Ali Ebrahim et al.
BMC SYSTEMS BIOLOGY (2013)
A MATLAB toolbox for structural kinetic modeling
Dorothee Girbig et al.
BIOINFORMATICS (2012)
F2C2: a fast tool for the computation of flux coupling in genome-scale metabolic networks
Abdelhalim Larhlimi et al.
BMC BIOINFORMATICS (2012)
FASIMU: flexible software for flux-balance computation series in large metabolic networks
Andreas Hoppe et al.
BMC BIOINFORMATICS (2011)
An integrated approach to characterize genetic interaction networks in yeast metabolism
Balazs Szappanos et al.
NATURE GENETICS (2011)
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0
Jan Schellenberger et al.
NATURE PROTOCOLS (2011)
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
Jan Schellenberger et al.
BMC BIOINFORMATICS (2010)
Computationally efficient flux variability analysis
Steinn Gudmundsson et al.
BMC BIOINFORMATICS (2010)
OptFlux: an open-source software platform for in silico metabolic engineering
Isabel Rocha et al.
BMC SYSTEMS BIOLOGY (2010)
What is flux balance analysis?
Jeffrey D. Orth et al.
NATURE BIOTECHNOLOGY (2010)
Connecting extracellular metabolomic measurements to intracellular flux states in yeast
Monica L. Mo et al.
BMC SYSTEMS BIOLOGY (2009)
Flux balance analysis of biological systems: applications and challenges
Karthik Raman et al.
BRIEFINGS IN BIOINFORMATICS (2009)
Interpreting Expression Data with Metabolic Flux Models: Predicting Mycobacterium tuberculosis Mycolic Acid Production
Caroline Colijn et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
LibSBML: an API library for SBML
Benjamin J. Bornstein et al.
BIOINFORMATICS (2008)
Large-scale computation of elementary flux modes with bit pattern trees
Marco Terzer et al.
BIOINFORMATICS (2008)
The Systems Biology Research Tool: evolvable open-source software
Jeremiah Wright et al.
BMC SYSTEMS BIOLOGY (2008)
Is maximization of molar yield in metabolic networks favoured by evolution?
Stefan Schuster et al.
JOURNAL OF THEORETICAL BIOLOGY (2008)
Large-scale reconstruction and phylogenetic analysis of metabolic environments
Elhanan Borenstein et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Structural and functional analysis of cellular networks with CellNetAnalyzer
Steffen Klamt et al.
BMC SYSTEMS BIOLOGY (2007)
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
Scott A. Becker et al.
NATURE PROTOCOLS (2007)
Regulatory on/off minimization of metabolic flux changes after genetic perturbations
T Shlomi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
Integration of gene expression data into genome-scale metabolic models
M Åkesson et al.
METABOLIC ENGINEERING (2004)
Genome-scale in silico models of E-coli have multiple equivalent phenotypic states:: Assessment of correlated reaction subsets that comprise network states
JL Reed et al.
GENOME RESEARCH (2004)
Genome-scale models of microbial cells: Evaluating the consequences of constraints
ND Price et al.
NATURE REVIEWS MICROBIOLOGY (2004)
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
R Mahadevan et al.
METABOLIC ENGINEERING (2003)
Advances in flux balance analysis
KJ Kauffman et al.
CURRENT OPINION IN BIOTECHNOLOGY (2003)
The systems biology markup language (SBML):: a medium for representation and exchange of biochemical network models
M Hucka et al.
BIOINFORMATICS (2003)
Extreme pathway lengths and reaction participation in genome-scale metabolic networks
JA Papin et al.
GENOME RESEARCH (2002)
Analysis of optimality in natural and perturbed metabolic networks
D Segrè et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)
Extreme pathway analysis of human red blood cell metabolism
SJ Wiback et al.
BIOPHYSICAL JOURNAL (2002)
Characterizing the metabolic phenotype: A phenotype phase plane analysis
JS Edwards et al.
BIOTECHNOLOGY AND BIOENGINEERING (2002)
Metabolic modelling of microbes: the flux-balance approach
JS Edwards et al.
ENVIRONMENTAL MICROBIOLOGY (2002)
Regulation of gene expression in flux balance models of metabolism
MW Covert et al.
JOURNAL OF THEORETICAL BIOLOGY (2001)
A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
S Schuster et al.
NATURE BIOTECHNOLOGY (2000)