Tutorials and Books

Text Books

A Text Book for undergraduates classes in systems biology and a reference guide for graduates and other professionals.
Enzyme Kinetics for Systems Biology

This text is geared towards those who need a reference or classroom text book that describes the various rate laws one can use to build a computer model of a cellular network. The text includes some topics not found in a typical enzyme kinetics text book, these include chapters on elasticities, generalized rate laws and the kinetic laws that one would use to build gene regulatory networks. The book is priced at $9.95 for the ebook or $29.95 for the paperback. For the ebook version there are free updates until the second edition is released.

Chapters include:

1. Reaction Kinetics
2. Elasticities
3. Basic Enzyme Kinetics
4. Enzyme Inhibition and Activation
5. Multireactant Rate Laws
6. Cooperativity
7. Allostery
8. Generalized Rate Laws
9. Kinetics of Gene Regulation
10. Basic Thermodynamics

Software Tutorials

Jarnac Video Tutorials

A Five Minute Introduction to Jarnac

Using Time Course Simulation Command

Introduction to Running Consecutive Simulation

A more Sophisticated Example of Running Consecutive Simulations

Teaching Videos

Basic Concepts:

1. Stoichiometric Amounts

2. Rates of Change

3. Stoichiometric Coefficients Part 1

4. Stoichiometric Coefficients Part 2

5. Reaction Rate

6. Units

Stoichiometric Networks:

1. A Simple Network

2. A Branched Network

3. MultiReactant System

4. Stoichiometry Matrix 1

5. Stochiometry Matrix 2