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Simulating Labeling to Estimate Kinetic Parameters for Flux Control Analysis
Time of Update: 2021-01-16
In a top-down approach to model assembly, unknown kinetic parameters are calculated using experimental data such as metabolite pool concentrations and transient labeling patterns after supply of an isotopically labeled substrate.
This chapter describes a modeling approach to estimate kinetic parameters which are then used to perform metabolic control analysis.
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High-Throughput Data Pipelines for Metabolic Flux Analysis in Plants
Time of Update: 2021-01-13
Central to this is developing an end to end data pipeline, crucial for integrating the wet lab experiments and analytics, combining hardware and software automation, and standardizing data representation providing importers and exporters to support third party tools.
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The flux vaccination tool recreates the history of the virus
Time of Update: 2021-01-05
, published July 20 in Genomic Biology, showed that strains of the virus used in the U.S. Civil War vaccine had been identified and their genomes reconstructed.
Duggan and colleagues collected genetic material from U.S. Civil War-era vaccination tools to identify the strains used to vaccinate against the flux.
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Measurement of Calcium Fluxes in Permeabilized Cells Using a 45Ca2+ Uptake and Release Assay
Time of Update: 2020-12-12
The author will describe a45 Ca 2+ -release assay used to monitor Ins(1,4,5)P 3 -induced Ca 2+ mobilization from nonmitochondrial intracellular Ca 2+ stores using “cytosol-like” buffer (CLB) and permeabilized SH-SY5Y neuroblastoma cell populations.
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Quantification of 13C Enrichments and Isotopomer Abundances for Metabolic Flux Analysis Using 1D NMR Spectroscopy
Time of Update: 2020-11-21
The analysis of stable isotope incorporation following feeding of13 C-labeled precursors to plant tissues provides the constraints necessary for metabolic flux analysis. This protocol describes the
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Isotopomer Measurement Techniques in Metabolic Flux Analysis II: Mass Spectrometry
Time of Update: 2020-11-21
Mass spectrometry (MS) offers a sensitive, reliable, and highly accurate method for measurement of isotopic labeling, which is required for generating comprehensive flux maps using metabolic flux analysis (MFA).
We describe the steps of sample preparation, MS analysis, and data handling required to obtain high-quality isotope labeling measurements that are applicable to MFA.
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14C Pulse Labeling to Estimate External Fluxes and Turnovers in Primary Metabolism
Time of Update: 2020-11-20
However, the modeling of steady state labeling allows the quantification of internal fluxes only and requires the estimation, by other methods, of the external fluxes, corresponding to substrate uptake (carbon input into the network) and to the production rate of compounds that accumulate within plant cells (network output).
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Flux Variability Analysis: Application to Developing Oilseed Rape Embryos Using Toolboxes for Constraint-Based Modeling
Time of Update: 2020-11-20
Flux variability analysis enables comprehensive exploration of alternate optimal routes in a metabolic network. This method is especially useful with models such asbna572 for the developing oilseed
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Flux Balance Analysis as an Alternative Method to Estimate Fluxes Without Labeling
Time of Update: 2020-11-20
In this chapter, we introduce flux balance analysis as a constraint-based method for the prediction of optimal metabolic fluxes in a given metabolic network.
Furthermore, we provide a step-by-step protocol for metabolic network reconstruction and constraint-based analysis using the COBRA Toolbox.
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Steady-State and Instationary Modeling of Proteinogenic and Free Amino Acid Isotopomers for Flux Quantification
Time of Update: 2020-11-13
Our methodology should be applicable to most isotope-assisted MFA applications and should serve as a general framework applicable to many realistic metabolic networks with little modification.
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Isotopomer Measurement Techniques in Metabolic Flux Analysis I: Nuclear Magnetic Resonance
Time of Update: 2020-11-11
Herein, we describe the methods for the experimental measurements for flux analysis, i.e., determination of the biomass composition (lipid, protein, soluble sugar, and starch) as well as detailed procedures of acid hydrolysis of protein and starch samples and NMR sample preparation, using soybean embryo culture as the model plant system.
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Non-invasive Flux Measurements Using Microsensors: Theory, Limitations, and Systems
Time of Update: 2020-11-11
Knowledge of the fluxes of ions and neutral molecules across the outer membrane or boundary of living tissues and cells is an important strand of applied molecular biology.
Two systems (MIFE™ and SIET) have been developed and have become widely used to implement this technique, and they are commercially available.
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Science Sub-Journal: The new COVID-19 hybrid test method can efficiently and highly flux detection of asymptomatic carriers.
Time of Update: 2020-09-28
study was recently published in the journal Science Advances under the title "Efficient high-doesn't SARS-CoV-2 testing to detect asymptomatic carriers." P-BEST design and testing of 384 samples with a positive carrying rate of 1%, pictured is Science Advances, 2020, doi:10.1126/sciadv.abc5961.
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A new system based on microflow control technology for double-water phase high flux droplets.
Time of Update: 2020-08-08
Recently, Qin Jianhua, a researcher at the Dalian Institute of Chemical Physics of the Chinese Academy of Sciences, made new progress in using microfluidic stoic technology to prepare biocompatible dual-water microcarriers, and the results were published in small, a materials journal.
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A membrane chip method that can identify 11 animal-derived components in high flux.
Time of Update: 2020-08-05
The results show that the method has good specificity and applicability, detection sensitivity and doping sensitivity can reach 0.1%, can quickly and accurately identify cattle, sheep, donkeys, yak, chicken, duck, rabbit, yak, fox, mouse, pig 11 animal-derived ingredients, can meet the meat food samples for cattle, sheep, yak, donkey and other pseudo-identification testing needs.