Results 11 to 20 of about 1,136,141 (298)
Predicting microbial interactions with approaches based on flux balance analysis: an evaluation [PDF]
BMC BioinformaticsBackground Given a genome-scale metabolic model (GEM) of a microorganism and criteria for optimization, flux balance analysis (FBA) predicts the optimal growth rate and its corresponding flux distribution for a specific medium.
Clémence Joseph +3 more
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Minimizing the number of optimizations for efficient community dynamic flux balance analysis. [PDF]
PLoS Computational Biology, 2020 Dynamic flux balance analysis uses a quasi-steady state assumption to calculate an organism's metabolic activity at each time-step of a dynamic simulation, using the well-known technique of flux balance analysis.
James D Brunner, Nicholas Chia
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Pangenome Flux Balance Analysis Toward Panphenomes [PDF]
The Pangenome, 2020 AbstractStudies of the pangenome have been empowered by an exponentially increasing amount of strain-specific genome sequencing data. With this data deluge comes a need for new tools to contextualize, analyze, and interpret such a vast amount of information.
Norsigian CJ +3 more
europepmc +3 more sources
popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. [PDF]
Bioinformatics, 2017 Abstract Motivation Intratumour heterogeneity poses many challenges to the treatment of cancer. Unfortunately, the transcriptional and metabolic information retrieved by currently available computational and experimental techniques portrays the average behaviour of intermixed and heterogeneous cell ...
Damiani C +5 more
europepmc +6 more sources
DistributedFBA.jl: high-level, high-performance flux balance analysis in Julia. [PDF]
Bioinformatics, 2017 Abstract Motivation Flux balance analysis and its variants are widely used methods for predicting steady-state reaction rates in biochemical reaction networks. The exploration of high dimensional networks with such methods is currently hampered by software performance limitations.
Heirendt L, Thiele I, Fleming RMT.
europepmc +9 more sources
What is flux balance analysis? [PDF]
Nature Biotechnology, 2010 Flux balance analysis is a mathematical approach for analyzing the flow of metabolites through a metabolic network. This primer covers the theoretical basis of the approach, several practical examples and a software toolbox for performing the calculations.
Jeffrey D, Orth +2 more
openaire +3 more sources
A quantitative description of light-limited cyanobacterial growth using flux balance analysis. [PDF]
PLoS Computational BiologyThe metabolism of phototrophic cyanobacteria is an integral part of global biogeochemical cycles, and the capability of cyanobacteria to assimilate atmospheric CO2 into organic carbon has manifold potential applications for a sustainable biotechnology ...
Rune Höper +3 more
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Simulating Serial-Target Antibacterial Drug Synergies Using Flux Balance Analysis. [PDF]
PLoS ONE, 2016 Flux balance analysis (FBA) is an increasingly useful approach for modeling the behavior of metabolic systems. However, standard FBA modeling of genetic knockouts cannot predict drug combination synergies observed between serial metabolic targets, even ...
Andrew S Krueger +6 more
doaj +2 more sources
Distributed flux balance analysis simulations of serial biomass fermentation by two organisms. [PDF]
PLoS ONE, 2020 Intelligent biorefinery design that addresses both the composition of the biomass feedstock as well as fermentation microorganisms could benefit from dedicated tools for computational simulation and computer-assisted optimization.
Edward Vitkin +5 more
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Dynamic flux balance analysis for synthetic microbial communities. [PDF]
IET Syst Biol, 2014 Dynamic flux balance analysis (DFBA) is an extension of classical flux balance analysis that allows the dynamic effects of the extracellular environment on microbial metabolism to be predicted and optimised. Recently this computational framework has been extended to microbial communities for which the individual species are known and genome‐scale ...
Henson MA, Hanly TJ.
europepmc +4 more sources