From Isotope Labeling Patterns to Metabolic Flux Rates
نویسندگان
چکیده
c © 2008 by John von Neumann Institute for Computing Permission to make digital or hard copies of portions of this work for personal or classroom use is granted provided that the copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. To copy otherwise requires prior specific permission by the publisher mentioned above.
منابع مشابه
Kinetic isotope effects significantly influence intracellular metabolite [ superscript 13 ] C labeling patterns and flux determination
Rigorous mathematical modeling of carbon-labeling experiments allows estimation of fluxes through the pathways of central carbon metabolism, yielding powerful information for basic scientific studies as well as for a wide range of applications. However, the mathematical models that have been developed for flux determination from 13C labeling data have commonly neglected the influence of kinetic...
متن کاملMetabolome-Wide Analysis of Stable Isotope Labeling—Is It Worth the Effort?
Stable isotope assisted metabolomics techniques have emerged as a valuable tool in systems biology for metabolic flux analysis and pathway discovery (Duckwall et al., 2013; Chokkathukalam et al., 2014; Niedenführ et al., 2015). Traditionally, stable isotope labeling analyses have been highly targeted, meaning that isotopic enrichment of only a small set of metabolites has been analyzed to deduc...
متن کاملBridging the gap between non-targeted stable isotope labeling and metabolic flux analysis
BACKGROUND Metabolism gained increasing interest for the understanding of diseases and to pinpoint therapeutic intervention points. However, classical metabolomics techniques only provide a very static view on metabolism. Metabolic flux analysis methods, on the other hand, are highly targeted and require detailed knowledge on metabolism beforehand. RESULTS We present a novel workflow to analy...
متن کاملApplication of Cooperative Convolution Optimization for C Metabolic Flux Analysis: Simulation of Isotopic Labeling Patterns Based on Tandem Mass Spectrometry Measurements
Metabolic fluxes are the key determinants of cellular metabolism. They are estimated from stable isotope labeling experiments and provide the informative parameters in evaluating cell physiology and causes of disease. Metabolic flux analysis involves in solving a system of non-linear isotopomer balance equations by simulating the isotopic labeling distributions of metabolites measured by tandem...
متن کاملUnderstanding metabolism with flux analysis: From theory to application.
Quantitative and qualitative knowledge of metabolic rates (i.e. fluxes) over a metabolic network and in specific cellular compartments gives insights into the regulation of metabolism and helps to understand the contribution of metabolic alterations to pathology. In this review we introduce methodology to resolve metabolic fluxes from stable isotope labeling and relevant techniques in model dev...
متن کامل