SUMOFLUX: A Generalized Method for Targeted 13C Metabolic Flux Ratio Analysis. [PDF]
PLoS Computational Biology, 2016 Metabolic fluxes are a cornerstone of cellular physiology that emerge from a complex interplay of enzymes, carriers, and nutrients. The experimental assessment of in vivo intracellular fluxes using stable isotopic tracers is essential if we are to ...
Maria Kogadeeva, Nicola Zamboni
doaj +6 more sources
Glucose priming effect on microbial intercellular metabolic flux diversity in a marine intertidal sediment. [PDF]
PLoS ONEMicrobial communities inhabiting intertidal sediment show diverse metabolisms to adapt to hydrodynamic conditions. However, the priming effect of exogenous organic matter on microbial metabolic fluxes remains poorly understood.
Tao Ji +9 more
doaj +2 more sources
Tandem Mass Spectrometry for 13C Metabolic Flux Analysis: Methods and Algorithms Based on EMU Framework [PDF]
Frontiers in Microbiology, 2019 In the past two decades, 13C metabolic flux analysis (13C-MFA) has matured into a powerful and widely used scientific tool in metabolic engineering and systems biology.
Jungik Choi, Maciek R. Antoniewicz
doaj +2 more sources
Isotopically nonstationary 13C metabolic flux analysis in resting and activated human platelets. [PDF]
Metab Eng, 2022 Platelet metabolism is linked to platelet hyper- and hypoactivity in numerous human diseases. Developing a detailed understanding of the link between metabolic shifts and platelet activation state is integral to improving human health. Here, we show the first application of isotopically nonstationary 13C metabolic flux analysis to quantitatively ...
Sake CL +5 more
europepmc +4 more sources
mfapy: An open-source Python package for 13C-based metabolic flux analysis
Metabolic Engineering Communications, 2021 13C-based metabolic flux analysis (13C-MFA) is an essential tool for estimating intracellular metabolic flux levels in metabolic engineering and biology.
Fumio Matsuda +6 more
doaj +1 more source
BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale.
PLoS Computational Biology, 2023 Metabolic fluxes, the number of metabolites traversing each biochemical reaction in a cell per unit time, are crucial for assessing and understanding cell function. 13C Metabolic Flux Analysis (13C MFA) is considered to be the gold standard for measuring
Tyler W H Backman +10 more
doaj +1 more source
Visual FTBL Generator: Visual Generation Tool for 13C-FLUX File [PDF]
Brazilian Archives of Biology and Technology, 2019 13C metabolic flux analysis (13C-MFA) has achieved increasing significance in quantitative metabolic system analysis in recent years. In 13C metabolic flux analysis, 13C-FLUX software is a major analytical tool.
Guojun Yu +3 more
doaj +1 more source
Assessment of transcriptomic constraint-based methods for central carbon flux inference
PLoS ONE, 2020 Motivation Determining intracellular metabolic flux through isotope labeling techniques such as 13C metabolic flux analysis (13C-MFA) incurs significant cost and effort.
Siddharth Bhadra-Lobo +3 more
doaj +2 more sources
13C metabolic flux analysis at a genome-scale [PDF]
Metabolic Engineering, 2015 Metabolic models used in 13C metabolic flux analysis generally include a limited number of reactions primarily from central metabolism. They typically omit degradation pathways, complete cofactor balances, and atom transition contributions for reactions outside central metabolism.
Gopalakrishnan, Saratram +1 more
openaire +2 more sources
A Method to Constrain Genome-Scale Models with 13C Labeling Data. [PDF]
PLoS Computational Biology, 2015 Current limitations in quantitatively predicting biological behavior hinder our efforts to engineer biological systems to produce biofuels and other desired chemicals.
Héctor García Martín +7 more
doaj +1 more source