Systems Biology
Properties of Reconstructed Networks

This textbook in systems biology describes how to model networks, how to determine their properties and how to relate these to phenotypic functions.

Bernhard Ø. Palsson (Author)

9780521859035, Cambridge University Press

Hardback, published 16 January 2006

336 pages
26.1 x 2 x 18.1 cm, 0.8 kg

'… [deserves] serious attention from any quantitative scientist or physicist who hopes to learn about modern biology … a welcome departure from the typical biology textbook … a very readable introduction to the subject … this is an exciting time for biology. The author exposes readers to enough material that the research literature in quantitative systems biology should become accessible.' Physics Today

Genome sequences are now available that enable us to determine the biological components that make up a cell or an organism. The discipline of systems biology examines how these components interact and form networks, and how the networks generate whole cell functions corresponding to observable phenotypes. This textbook, devoted to systems biology, describes how to model networks, how to determine their properties, and how to relate these to phenotypic functions. The prerequisites are some knowledge of linear algebra and biochemistry. Though the links between the mathematical ideas and biological processes are made clear, the book reflects the irreversible trend of increasing mathematical content in biology education. Therefore to assist both teacher and student, in an associated website Palsson provides problem sets, projects and Powerpoint slides, and keeps the presentation in the book concrete with illustrative material and experimental results.

Preface
1. Introduction
2. Basic concepts in systems biology
Part I. Reconstruction of Biochemical Networks: 3. Metabolic networks
4. Regulatory networks
5. Signalling networks
Part II. Mathematical Representation of Reconstructed Networks: 6. Basic features of S
7. Topological properties
8. Fundamental subspaces
9. Null space of S
10. The left null space of S
11. The row and column spaces of S
Part III. Capabilities of Reconstructed Networks: 12. Dual causality
13. Properties of solution spaces
14. Sampling properties of solution spaces
15. Finding functional states
16. Parametric sensitivity
17. Epilogue
Appendix A: nomenclature and abbreviations
Appendix B: E. coli core metabolic network
Bibliography
Index.

Subject Areas: Computer science [UY], Biochemical engineering [TC], Cellular biology [cytology PSF], Molecular biology [PSD], Biochemistry [PSB], Genetics [non-medical PSAK], Applied mathematics [PBW]