Computationally efficient flux variability analysis

BMC Bioinformatics

Software

Steinn Gudmundsson¹  Ines Thiele² 

[1] Center for Systems Biology, University of Iceland, Reykjavik, Iceland;Center for Systems Biology, University of Iceland, Reykjavik, Iceland;Faculty of Industrial Engineering, Mechanical & Industrial Engineering & Computer Science, University of Iceland, Reykjavik, Iceland;

关键词: Flux Balance Analysis;    Metabolic Flux Analysis;    System Biology Markup Language;    Biochemical Reaction Network;    Network Flexibility;   

DOI  :  10.1186/1471-2105-11-489

 received in 2010-05-26, accepted in 2010-09-29,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundFlux variability analysis is often used to determine robustness of metabolic models in various simulation conditions. However, its use has been somehow limited by the long computation time compared to other constraint-based modeling methods.ResultsWe present an open source implementation of flux variability analysis called fastFVA. This efficient implementation makes large-scale flux variability analysis feasible and tractable allowing more complex biological questions regarding network flexibility and robustness to be addressed.ConclusionsNetworks involving thousands of biochemical reactions can be analyzed within seconds, greatly expanding the utility of flux variability analysis in systems biology.

【 授权许可】

CC BY   
© Gudmundsson and Thiele; licensee BioMed Central Ltd. 2010