A MATLAB toolbox for structural kinetic modeling
- Structural kinetic modeling (SKM) enables the analysis of dynamical properties of metabolic networks solely based on topological information and experimental data. Current SKM-based experiments are hampered by the time-intensive process of assigning model parameters and choosing appropriate sampling intervals for MonteCarlo experiments. We introduce a toolbox for the automatic and efficient construction and evaluation of structural kinetic models (SK models). Quantitative and qualitative analyses of network stability properties are performed in an automated manner. We illustrate the model building and analysis process in detailed example scripts that provide toolbox implementations of previously published literature models.
| Author details: | Dorothee Girbig, Joachim SelbigGND, Sergio Grimbs |
|---|---|
| DOI: | https://doi.org/10.1093/bioinformatics/bts473 |
| ISSN: | 1367-4803 |
| Title of parent work (English): | Bioinformatics |
| Publisher: | Oxford Univ. Press |
| Place of publishing: | Oxford |
| Publication type: | Article |
| Language: | English |
| Year of first publication: | 2012 |
| Publication year: | 2012 |
| Release date: | 2017/03/26 |
| Volume: | 28 |
| Issue: | 19 |
| Number of pages: | 2 |
| First page: | 2546 |
| Last Page: | 2547 |
| Funding institution: | International Max Planck Research School Primary Metabolism and Plant Growth; ColoNET project; German Federal Ministry of Education and Research [0315417F] |
| Organizational units: | Mathematisch-Naturwissenschaftliche Fakultät / Institut für Biochemie und Biologie |
| Peer review: | Referiert |
