Book chapter
Chapter 15 - Spatiotemporal Systems Biology
Computational Systems Biology, pp 327-362
2006
Abstract
This chapter provides an introduction into spatiotemporal (ST) systems biology. It is a testament to systems biology's recent coming of age that even this immense complexity belies the true nature of cells. A host of compartments—such as the mitochondria, endoplasmic reticulum (ER), nucleus, Golgi apparatus, lysosomes, and peroxisomes—play important and localized roles in cellular function. The nucleus serves as a repository for the genome and is the chief location of regulatory processes controlling gene expression as well as DNA and RNA synthesis. Defunct macromolecules are degraded in lysosomes. Specific oxidative reactions that would be harmful if occurring in the cytosol are confined within peroxisomes. Because biological processes involve a large number of molecules and protein species, the state space is too large for an exact solution of stochastic differential equations describing a reaction. CellSim will integrate the coupled system using both standard integrators as well as Rosenbrock methods. For standard integrators, the propagator is reasonably simple to define. One needs only to generate the appropriate equations and consider the extended system.
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3 citations in Scopus
Details
- Title
- Chapter 15 - Spatiotemporal Systems Biology
- Creators
- Avijit Ghosh - Drexel UniversityDavid Miller - Drexel UniversityRui Zou - Drexel UniversityBahrad Sokhansanj - Drexel UniversityAndres Kriete - Drexel University
- Publication Details
- Computational Systems Biology, pp 327-362
- Publisher
- Elsevier
- Resource Type
- Book chapter
- Language
- English
- Academic Unit
- Electrical and Computer Engineering; School of Biomedical Engineering, Science, and Health Systems; Physician Assistant
- Scopus ID
- 2-s2.0-33645914312
- Other Identifier
- 991019173697904721