Results 1 to 10 of about 33,381 (178)

mfapy: An open-source Python package for ¹³C-based metabolic flux analysis. [PDF]

Metab Eng Commun, 2021
13C-based metabolic flux analysis (13C-MFA) is an essential tool for estimating intracellular metabolic flux levels in metabolic engineering and biology.
Matsuda F, Maeda K, Taniguchi T, Kondo Y, Yatabe F, Okahashi N, Shimizu H.   +6 more
europepmc   +4 more sources

The Metabolic Flux Probe (MFP)-Secreted Protein as a Non-Disruptive Information Carrier for ¹³C-Based Metabolic Flux Analysis. [PDF]

Int J Mol Sci, 2021
Novel cultivation technologies demand the adaptation of existing analytical concepts. Metabolic flux analysis (MFA) requires stable-isotope labeling of biomass-bound protein as the primary information source. Obtaining the required protein in cultivation set-ups where biomass is inaccessible due to low cell densities and cell immobilization is ...
Dusny C, Schmid A.
europepmc   +4 more sources

Quantitative Metabolomics and Instationary 13C-Metabolic Flux Analysis Reveals Impact of Recombinant Protein Production on Trehalose and Energy Metabolism in Pichia pastoris [PDF]

Metabolites, 2014
Pichia pastoris has been recognized as an effective host for recombinant protein production. In this work, we combine metabolomics and instationary 13C metabolic flux analysis (INST 13C-MFA) using GC-MS and LC-MS/MS to evaluate the potential impact of ...
Joel Jordà, Hugo Cueto Rojas, Marc Carnicer, Aljoscha Wahl, Pau Ferrer, Joan Albiol   +5 more
doaj   +4 more sources

OpenMebius: an open source software for isotopically nonstationary 13C-based metabolic flux analysis. [PDF]

Biomed Res Int, 2014
Thein vivomeasurement of metabolic flux by13C-based metabolic flux analysis (13C-MFA) provides valuable information regarding cell physiology. Bioinformatics tools have been developed to estimate metabolic flux distributions from the results of tracer isotopic labeling experiments using a13C-labeled carbon source.
Kajihata S, Furusawa C, Matsuda F, Shimizu H.   +3 more
europepmc   +4 more sources

Implementation of data-dependent isotopologue fragmentation in ¹³C-based metabolic flux analysis. [PDF]

Anal Bioanal Chem, 2017
A novel analytical approach based on liquid chromatography coupled to quadrupole time of flight mass spectrometry, employing data-dependent triggering for analysis of isotopologue and tandem mass isotopomer fractions of metabolites of the primary carbon metabolism was developed. The implemented QTOFMS method employs automated MS/MS triggering of higher
Mairinger T, Hann S.
europepmc   +5 more sources

Flux-Enabled Exploration of the Role of Sip1 in Galactose Yeast Metabolism [PDF]

Frontiers in Bioengineering and Biotechnology, 2017
13C metabolic flux analysis (13C MFA) is an important systems biology technique that has been used to investigate microbial metabolism for decades. The heterotrimer Snf1 kinase complex plays a key role in the preference Saccharomyces cerevisiae exhibits ...
Christopher M. Shymansky, Christopher M. Shymansky, Christopher M. Shymansky, George Wang, George Wang, Edward E. K. Baidoo, Edward E. K. Baidoo, Jennifer Gin, Jennifer Gin, Amanda Reider Apel, Amanda Reider Apel, Aindrila Mukhopadhyay, Aindrila Mukhopadhyay, Héctor García Martín, Héctor García Martín, Héctor García Martín, Héctor García Martín, Jay D. Keasling, Jay D. Keasling, Jay D. Keasling, Jay D. Keasling, Jay D. Keasling   +21 more
doaj   +3 more sources

Glucose priming effect on microbial intercellular metabolic flux diversity in a marine intertidal sediment. [PDF]

PLoS One
Microbial 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.
Ji T, Xu Z, Wen L, Yang Y, Wu Y, Zhao X, Yao R, Liu R, Xu Y, Wu W.   +9 more
europepmc   +2 more sources

¹³C-metabolic flux analysis of <i>Saccharomyces cerevisiae</i> in complex media. [PDF]

Metab Eng Commun
Saccharomyces cerevisiae is often cultivated in complex media for applications in food and other biochemical production. However, 13C-metabolic flux analysis (13C-MFA) has been conducted for S.
Fujiwara H, Okahashi N, Seike T, Matsuda F.   +3 more
europepmc   +2 more sources

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, Min Kyung Kim, Desmond S. Lun, Rajagopal Subramanyam   +3 more
doaj   +2 more sources

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, Christina Schenk, Tijana Radivojevic, David Ando, Jahnavi Singh, Jeffrey J Czajka, Zak Costello, Jay D Keasling, Yinjie Tang, Elena Akhmatskaya, Hector Garcia Martin   +10 more
doaj   +1 more source