Next, we performed a 13C-labeling experiment with [1,2-13C] [1,2-13C]s the tracer and calculated intracellular metabolic fluxes usinglucoseFas
Flux balance analysis (FBA) is a widely used method for estimating metabolic fluxes using genome-scale metabolic models (GSMs) (Feist and Palsson, 2008; Oberhardt et al., 2009).
In another effort to link the regulatory and metabolic responses, Moxley et al. [ 25] proposed a hybrid approach to predict changes in metabolic fluxes using gene expression changes.
For instance, Escherichia coli cells evolved by experimental evolution to predicted optimal metabolic fluxes, using a computer model of the metabolic network [ 3].
The model then facilitated the scanning of changes in the variability among metabolic fluxes using FVA in response to the enforced enhancement of the fluxes toward a target chemical.
We used [1,2-C2]-glucose as a tracer, analysed isotopomer distributions by gas cromatography (GC) coupled with mass spectrometry (MS), and quantified metabolic fluxes using Isodyn software [ 26],[ 33]-[ 36].
We also investigate the SOG pathway inhibition by the antifolate methotrexate, focusing on signatures of energy stress and changes in metabolic fluxes using a targeted tracer fate association study (TTFAS).
They measured gene expression levels (See Additional file 1 for details about gene expression data processing), metabolic fluxes (using C-labeling experiments), and the intracellular concentration of free amino acids for each culture.
It has been applied as an inference tool for predicting metabolic fluxes using isotopomer flux data [ 29], analysing genomic and proteomic data [ 25], identifying signalling networks by inducing cellular response to different stimuli [ 30- 32] and network structure using metabolomic data [ 33].
