The Book of GENESIS

1. Front Matter

   Pages i-xxiv

   PDF

2. Neurobiological Tutorials with GENESIS

   1. Front Matter

      Pages 1-1

      PDF

   2. Introduction

      • James M. Bower, David Beeman

      Pages 3-5

   3. Compartmental Modeling

      • James M. Bower, David Beeman

      Pages 7-15

   4. Neural Modeling with GENESIS

      • James M. Bower, David Beeman

      Pages 17-27

   5. The Hodgkin—Huxley Model

      • Mark Nelson, John Rinzel

      Pages 29-49

   6. Cable and Compartmental Models of Dendritic Trees

      • Idan Segev

      Pages 51-77

   7. Temporal Interactions Between Postsynaptic Potentials

      • Idan Segev

      Pages 79-96

   8. Ion Channels in Bursting Neurons

      • James M. Bower, David Beeman

      Pages 97-130

   9. Central Pattern Generators

      • Sharon Crook, Avis Cohen

      Pages 131-147

   10. Dynamics of Cerebral Cortical Networks

       • Alexander Protopapas, James M. Bower

       Pages 149-168

   11. The Network Within: Signaling Pathways

       • Upinder S. Bhalla

       Pages 169-191

3. Creating Simulations with GENESIS

   1. Front Matter

      Pages 193-193

      PDF

   2. Constructing New Models

      • James M. Bower

      Pages 195-201

   3. Introduction to GENESIS Programming

      • David Beeman, Matthew A. Wilson

      Pages 203-213

   4. Simulating a Neuron Soma

      • David Beeman

      Pages 215-224

   5. Adding Voltage-Activated Channels

      • David Beeman

      Pages 225-241

   6. Adding Dendrites and Synapses

      • David Beeman

      Pages 243-254

   7. Automating Cell Construction with the Cell Reader

      • David Beeman

      Pages 255-263

   8. Building a Cell with Neurokit

      • David Beeman

      Pages 265-277

This is the second edition of a step-by -step tutorial for professionals, researchers and students working in the area of neuroscience in general, and computational neuroscience in particular. It can also be used as an interactive self-study guide to understanding biological neuronal and network structure for those working in the area of artificial neural networks and the cognitive sciences. The tutorials are based upon the GENESIS neural simulation system, which is now being used for teaching and research in at least 26 countries. The following chapters consist of a combination of edited contributions from researchers in computational neuroscience and current users of the system, as well as several chapters that we have written ourselves. This book, and the tutorial simulations on which it is based, grew out of a simulation laboratory accompanying the annual Methods in Computational Neuroscience course taught at the Marine Biological Laboratory in Woods Hole, MA from 1988 to 1992. Since that time, the tutorials have been further developed and refined while being used in courses taught at Caltech and several other institutions, including the Crete course in Computational Neuroscience. For this second edition, we have made many revisions and additions based on comments, suggestions and corrections from members of the GENESIS Users Group, BABEL, and from students and teachers who have used this book.

• Internet
• computer
• modeling
• networks
• neuroscience
• programming
• simulation
• visualization

• Division of Biology, California Institute of Technology, Pasadena, USA

  James M. Bower

• Department of Electrical and Computer Engineering, University of Colorado, Boulder, USA

  David Beeman

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