Paper Info
Title
influx_s: increasing numerical stability and precision for metabolic flux analysis in isotope labelling experiments.
Abstract
Motivation: The problem of stationary metabolic flux analysis based on isotope labelling experiments first appeared in the early 1950s and was basically solved in early 2000s. Several algorithms and software packages are available for this problem. However, the generic stochastic algorithms (simulated annealing or evolution algorithms) currently used in these software require a lot of time to achieve acceptable precision. For deterministic algorithms, a common drawback is the lack of convergence stability for illconditioned systems or when started from a random point. Results: In this article, we present a new deterministic algorithm with significantly increased numerical stability and accuracy of flux estimation compared with commonly used algorithms. It requires relatively short CPU time (from several seconds to several minutes with a standard PC architecture) to estimate fluxes in the central carbon metabolism network of Escherichia coli. Availability: The software package influx_s implementing this algorithm is distributed under an OpenSource licence at http://metasys.insa-toulouse.fr/software/influx/
Year
DOI
Venue
2012
10.1093/bioinformatics/btr716
BIOINFORMATICS
Field
DocType
Volume
Simulated annealing,Convergence (routing),Computer science,CPU time,Metabolic flux analysis,Algorithm,Software,Flux,Deterministic algorithm,Numerical stability
Journal
28
Issue
ISSN
Citations 
5
1367-4803
4
PageRank 
References 
Authors
0.78
2
3
Name
Order
Citations
PageRank
Serguei Sokol181.51
Pierre Millard2133.05
Jean-Charles Portais3153.25