Related references
Note: Only part of the references are listed.GAPSPLIT: efficient random sampling for non-convex constraint-based models
Thomas C. Keaty et al.
BIOINFORMATICS (2020)
Comparative studies of glycolytic pathways and channeling under in vitro and in vivo modes
Mary H. Abernathy et al.
AICHE JOURNAL (2019)
Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0
Laurent Heirendt et al.
NATURE PROTOCOLS (2019)
Bayesian metabolic flux analysis reveals intracellular flux couplings
Markus Heinonen et al.
BIOINFORMATICS (2019)
Temperature-Dependent Estimation of Gibbs Energies Using an Updated Group-Contribution Method
Bin Du et al.
BIOPHYSICAL JOURNAL (2018)
Integrating -omics data into genome-scale metabolic network models: principles and challenges
Charlotte Ramon et al.
SYSTEMS BIOLOGY (2018)
Thermodynamic favorability and pathway yield as evolutionary tradeoffs in biosynthetic pathway choice
Bin Du et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
iML1515, a knowledgebase that computes Escherichia coli traits
Jonathan M. Monk et al.
NATURE BIOTECHNOLOGY (2017)
Bioenergetics-based modeling of Plasmodium falciparum metabolism reveals its essential genes, nutritional requirements, and thermodynamic bottlenecks
Anush Chiappino-Pepe et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
CHRR: coordinate hit-and-run with rounding for uniform sampling of constraint-based models
Hulda S. Haraldsdottir et al.
BIOINFORMATICS (2017)
ll-ACHRB: a scalable algorithm for sampling the feasible solution space of metabolic networks
Pedro A. Saa et al.
BIOINFORMATICS (2016)
Metabolite concentrations, fluxes and free energies imply efficient enzyme usage
Junyoung O. Park et al.
NATURE CHEMICAL BIOLOGY (2016)
CycleFreeFlux: efficient removal of thermodynamically infeasible loops from flux distributions
Abdelmoneim Amer Desouki et al.
BIOINFORMATICS (2015)
Sampling with poling-based flux balance analysis: optimal versus sub-optimal flux space analysis of Actinobacillus succinogenes
Michael Binns et al.
BMC BIOINFORMATICS (2015)
An algorithm for the reduction of genome-scale metabolic network models to meaningful core models
Philipp Erdrich et al.
BMC SYSTEMS BIOLOGY (2015)
Pseudo-transition Analysis Identifies the Key Regulators of Dynamic Metabolic Adaptations from Steady-State Data
Luca Gerosa et al.
CELL SYSTEMS (2015)
Metabolic engineering of Escherichia coli for poly(3-hydroxybutyrate) production via threonine bypass
Zhenquan Lin et al.
MICROBIAL CELL FACTORIES (2015)
COBRApy: COnstraints-Based Reconstruction and Analysis for Python
Ali Ebrahim et al.
BMC SYSTEMS BIOLOGY (2013)
Consistent Estimation of Gibbs Energy Using Component Contributions
Elad Noor et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
Quantitative Assignment of Reaction Directionality in a Multicompartmental Human Metabolic Reconstruction
H. S. Haraldsdottir et al.
BIOPHYSICAL JOURNAL (2012)
What is flux balance analysis?
Jeffrey D. Orth et al.
NATURE BIOTECHNOLOGY (2010)
Influence of Uncertainties in pH, pMg, Activity Coefficients, Metabolite Concentrations, and Other Factors on the Analysis of the Thermodynamic Feasibility of Metabolic Pathways
Vojislav Vojinovic et al.
BIOTECHNOLOGY AND BIOENGINEERING (2009)
Large-scale computation of elementary flux modes with bit pattern trees
Marco Terzer et al.
BIOINFORMATICS (2008)
Group contribution method for thermodynamic analysis of complex metabolic networks
Matthew D. Jankowski et al.
BIOPHYSICAL JOURNAL (2008)
A novel two-domain architecture within the amino acid kinase enzyme family revealed by the crystal structure of Escherichia coli glutamate 5-kinase
Clara Marco-Marin et al.
JOURNAL OF MOLECULAR BIOLOGY (2007)
Thermodynamics-based metabolic flux analysis
Christopher S. Henry et al.
BIOPHYSICAL JOURNAL (2007)
Interaction between muscle aldolase and muscle fructose 1,6-bisphosphatase results in the substrate channeling
D Rakus et al.
BIOCHEMISTRY (2004)
Thermodynamics of enzyme-catalyzed reactions - a database for quantitative biochemistry
RN Goldberg et al.
BIOINFORMATICS (2004)
Uniform sampling of steady-state flux spaces: Means to design experiments and to interpret enzymopathies
ND Price et al.
BIOPHYSICAL JOURNAL (2004)
Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from? A pathway-oriented perspective
CH Schilling et al.
JOURNAL OF THEORETICAL BIOLOGY (2000)