Email updates

Keep up to date with the latest news and content from BMC Bioinformatics and BioMed Central.

Open Access Highly Accessed Software

SBML-SAT: a systems biology markup language (SBML) based sensitivity analysis tool

Zhike Zi1, Yanan Zheng2, Ann E Rundell3* and Edda Klipp14*

Author Affiliations

1 Computational Systems Biology, Max Planck Institute for Molecular Genetics, Ihnestr. 73, 14195 Berlin, Germany

2 Entelos Inc., 110 Marsh Drive, Foster City, CA 94404, USA

3 Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN 47907, USA

4 Theoretical Biophysics, Humboldt University Berlin, Institute for Biology, Invalidenstr, 42, 10115 Berlin, Germany

For all author emails, please log on.

BMC Bioinformatics 2008, 9:342  doi:10.1186/1471-2105-9-342

Published: 15 August 2008

Abstract

Background

It has long been recognized that sensitivity analysis plays a key role in modeling and analyzing cellular and biochemical processes. Systems biology markup language (SBML) has become a well-known platform for coding and sharing mathematical models of such processes. However, current SBML compatible software tools are limited in their ability to perform global sensitivity analyses of these models.

Results

This work introduces a freely downloadable, software package, SBML-SAT, which implements algorithms for simulation, steady state analysis, robustness analysis and local and global sensitivity analysis for SBML models. This software tool extends current capabilities through its execution of global sensitivity analyses using multi-parametric sensitivity analysis, partial rank correlation coefficient, SOBOL's method, and weighted average of local sensitivity analyses in addition to its ability to handle systems with discontinuous events and intuitive graphical user interface.

Conclusion

SBML-SAT provides the community of systems biologists a new tool for the analysis of their SBML models of biochemical and cellular processes.