Concept

Flux (metabolism)

Publications associées (253)

Unraveling the inhibitory effects of acetate on ethanol production in CEN.PK

Vassily Hatzimanikatis, Ljubisa Miskovic, Keng Cher Soh, Anirikh Chakrabarti

In this study, we used the ORACLE (Optimization and Risk Analysis of Complex Living Entities)[1] framework to study the impact of extracellular acetic acid on the S. cerevisiae metabolism with the aim to improve ethanol production in the presence of this i ...

2014

Towards kinetic modeling of genome-scale metabolic networks without sacrificing stoichiometric, thermodynamic and physiology constraints

Vassily Hatzimanikatis, Ljubisa Miskovic, Keng Cher Soh, Anirikh Chakrabarti

Mathematical modeling is an essential tool for a comprehensive understanding of cell metabolism and its interactions with the environmental and process conditions. Recent developments in the construction and analysis of stoichiometric models made it possib ...

2013

Identification of Feasible Metabolic Fluxes and Metabolite Concentrations using Large-scale Kinetic Models

Vassily Hatzimanikatis, Ljubisa Miskovic, Keng Cher Soh, Anirikh Chakrabarti

The constraints imposed during modeling must satisfy biologically representative phenotypes of the studied organism. Simultaneously, identification and analysis of these constraints enhances our understanding of the evolution/operational paradigms of the o ...

2013

Thermodynamics-based Significance Ranking of Candidates for Metabolomics

Vassily Hatzimanikatis

Integration of experimental measurements of intracellular metabolite concentrations in genome scale models restricts the thermodynamically feasible flux space and reduces uncertainty regarding the net outcome of by-directional reactions. By combining tFBA, ...

2013

Thermodynamics-Based Significance Ranking of Candidates for Metabolomics

Vassily Hatzimanikatis

Cellular metabolism is the driving force of all living cells and organisms. Numerous research projects undertaken over the past century have attempted to decipher the function and operating principles of metabolism with varying degrees of success. A wide s ...

2013

Computational Studies on Cellular Bioenergetics

Keng Cher Soh

Genome-scale metabolic reconstructions have become indispensable tools for understanding and investigation of the metabolism of any organism in this post-genomic era. However, there are still knowledge gaps in our understanding of the metabolism of even th ...

EPFL2013

Unlocking Yeast Metabolism: Identification of optimal flux directionalities

Vassily Hatzimanikatis, Ljubisa Miskovic, Keng Cher Soh, Anirikh Chakrabarti

Metabolic modeling has proven to be a valuable tool in the investigation of cellular physiology, especially in the post-genomic era. However, the sheer complexity of even the simplest metabolic networks obstructs the exact determination of intracellular st ...

2013

Glutamatergic and GABAergic energy metabolism measured in the rat brain by 13C NMR spectroscopy at 14.1 T

Rolf Gruetter, João Miguel das Neves Duarte

Energy metabolism supports both inhibitory and excitatory neurotransmission processes. This study investigated the specific contribution of astrocytic metabolism to γ-aminobutyric acid (GABA) synthesis and inhibitory GABAergic neurotransmission that remain ...

Wiley-Blackwell2013

In vivo metabolic studies in skeletal and cardiac muscle using ¹³C magnetic resonance spectroscopy

Josefina Adriana Maria Bastiaansen

Cardiac and skeletal muscle function relies on a continuous energy production via fatty acid metabolism and mitochondrial oxidation of pyruvate, with a fine balance between substrate delivery and utilization. Changes in metabolism are increasingly being im ...

EPFL2013

In silico analysis of the interplay between P/O ratio and physiological states of the optimally grown Escherichia coli

Ljubisa Miskovic, Meriç Ataman, Keng Cher Soh, Stefano Andreozzi

The bioenergetics efficiency of aerobic respiration of an organism is expressed through P/O ratio, which represents the ATP production per oxygen atom reduced in Electron Transport Chains (ETC). P/O ratio, to date, has not been extensively used in the cont ...

2013

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