Sinopsis
Suddenly, systems biology is everywhere. What is it? How did it arise? The driving force for its growth is high-throughput (HT) technologies that allow us to enumerate biological components on a large scale. The delineation of the chemical interactions of these components gives rise to reconstructed biochemical reaction networks that underlie various cellular functions. Systems biology is thus not necessarily focused on the components themselves, but on the nature of the links that connect them and the functional states of the networks that result from the assembly of all such links. The stoichiometric matrix represents such links mathematically based on the underlying chemistry, and the properties of this matrix are key to determining the functional states of the biochemical reaction networks that it represents.
Content
- Introduction
- Basic Concepts in Systems Biology
- Metabolic Networks
- Transcriptional Regulatory Networks
- Signaling Networks
- Basic Features of the Stoichiometric Matrix
- Topological Properties
- Fundamental Subspaces of S
- The (Right) Null Space of S
- The Left Null Space of S
- The Row and Column Spaces of S
- Dual Causality
- Properties of Solution Spaces
- Sampling Solution Spaces
- Finding Functional States
- Parametric Sensitivity
- Epilogue
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