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Analysis of yeast metabolism using metabolic control analysis under uncertainty

Publications associées (49)

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Mitochondrial sirtuins and metabolic homeostasis

Johan Auwerx, Eija Riitta Pirinen, Giuseppe Lo Sasso

The maintenance of metabolic homeostasis requires the well-orchestrated network of several pathways of glucose, lipid and amino acid metabolism. Mitochondria integrate these pathways and serve not only as the prime site of cellular energy harvesting but al ...

Elsevier Sci Ltd2012

Modeling of uncertainties in biochemical reactions

Vassily Hatzimanikatis, Ljubisa Miskovic

Mathematical modeling is an indispensable tool for research and development in biotechnology and bioengineering. The formulation of kinetic models of biochemical networks depends on knowledge of the kinetic properties of the enzymes of the individual react ...

Wiley-Blackwell2010

Computational Analysis of Xylose-Utilizing Saccharomyces cerevisiae

Vassily Hatzimanikatis, Ljubisa Miskovic

Xylose fermentation from lignocellulosic material using recombinant yeast cells is a promising resource for efficient ethanol production as a future sustainable energy supply. Experimental approaches emphasize the engineering of xylose-utilizing recombinan ...

2010

Metabolic Networks of Longevity

Johan Auwerx, Richardus Houtkooper

Molecular and cellular networks implicated in aging depend on a multitude of proteins that collectively mount adaptive and contingent metabolic responses to environmental challenges. Here, we discuss the intimate links between metabolic regulation and long ...

2010

DREAMS of metabolism

Vassily Hatzimanikatis, Keng Cher Soh

Metabolic networks have been studied for decades, and sophisticated computational frameworks are needed to augment experimental approaches to harness these complex networks. BNICE (Biochemical Network Integrated Computational Explorer), a computational app ...

Elsevier2010

Quantification of uncertainty in metabolic networks through the sampling of kinetic data space

Vassily Hatzimanikatis, Ljubisa Miskovic

Study of a metabolic network with respect to the sensitivity of the metabolite concentrations and the metabolic fluxes to genetic, biochemical, and environmental variations requires knowledge of the kinetic properties of the enzymes in the network. Experim ...

2009

Enzyme States Allow Identification of Rate-Limiting Steps

Vassily Hatzimanikatis, Ljubisa Miskovic

A precise quantification of the effect of perturbations in a metabolic network depends on explicit knowledge of the kinetic properties of the enzymes of the individual reactions. However, a comprehensive knowledge of enzymes kinetics in a metabolic network ...

2008

Metabolic engineering under uncertainty-II: Analysis of yeast metabolism

Vassily Hatzimanikatis

Yeast metab. has been used extensively in scientific investigations and industrial applications. Understanding the properties of the yeast metabolic network is crucial, yet unaccomplished due to its high complexity, the different culture conditions, and th ...

2006

Exploring the diversity of complex metabolic networks

Vassily Hatzimanikatis

Motivation: Metab., the network of chem. reactions that make life possible, is one of the most complex processes in nature. We describe here the development of a computational approach for the identification of every possible biochem. reaction from a given ...

2005

How reliable are thermodynamic feasibility statements of biochemical pathways?

Urs von Stockar

The driving force for organo- or lithotrophic growth as well as for each step in the metabolic network is the Gibbs reaction energy. For each enzymic step it must be neg. Thermodn. contributes therefore to the in-silico description of living systems. It ma ...

2005