Internet Edition

(C) 2003 James M. Bower and David Beeman

Permission to use, copy, and distribute this material in printed or electronic form, for any purpose and without fee, is hereby granted, provided that this copyright notice appears with all copies.

These are the Portable Document Format (PDF) files for "The Book of GENESIS". If your browser has a helper or plugin for viewing PDF files, you may read these chapters from these links. Otherwise, change into this directory (iBoGpdf) and use Acrobat Reader (acroread) or xpdf to view the files. Acrobat Reader seems to do a better job of rendering the equations. If one of the equations doesn't look right, try zooming in on it.

For more information about "The Book of GENESIS" go to http://www.genesis-sim.org/GENESIS/bog/bog.html

To download these PDF files or Postscript versions suitable for printing, go to http://www.genesis-sim.org/GENESIS/iBoG/index.html

Preface

• titlepage.pdf -- The "Book of GENESIS" title page containing the copyright notice, which should be included with any printed or electronic copies.

• preface.pdf - Preface to the Internet Edition, with updated information

• frontmatter.pdf - Contains the original second edtition preface, contributors, and table of contents

Part I - Neurobiological Tutorials with GENESIS

• chapt1.pdf - Introduction - James M. Bower and David Beeman

• chapt2.pdf - Compartmental Modeling - James M. Bower and David Beeman

• chapt3.pdf - Neural Modeling with GENESIS - James M. Bower and David Beeman

• chapt4.pdf - The Hodgkin-Huxley Model - Mark Nelson and John Rinzel

• chapt5.pdf - Cable and Compartmental Models of Dendritic Trees - Idan Segev

• chapt6.pdf - Temporal Interactions Between Post-Synaptic Potentials - Idan Segev

• chapt7.pdf - Ion Channels and Bursting Neurons - David Beeman and James M. Bower

• chapt8.pdf - Central Pattern Generators - Sharon Crook and Avis Cohen

• chapt9.pdf - Dynamical Properties of Cerebral Cortical Networks - James M. Bower and Alex Protopapas

• chapt10.pdf - The Network Within: Signaling Pathways - Upinder S. Bhalla

Part II - Creating Simulations with GENESIS

• chapt11.pdf - Constructing New Models - James M. Bower

• chapt12.pdf - Introduction to GENESIS Programming - David Beeman and Matthew A. Wilson

• chapt13.pdf - Simulating a Neuron Soma - David Beeman

• chapt14.pdf - Adding Voltage-Activated Channels - David Beeman

• chapt15.pdf - Adding Dendrites and Synapses - David Beeman

• chapt16.pdf - Automating Cell Construction with the Cell Reader - David Beeman

• chapt17.pdf - Building a Cell With Neurokit - David Beeman

• chapt18.pdf - Constructing Neural Circuits and Networks - Michael Vanier and David Beeman

• chapt19.pdf - Implementing Other Types of Channels - David Beeman

• chapt20.pdf - Speeding Up GENESIS Simulations with hsolve - Erik De Schutter and David Beeman

• chapt21.pdf - Large-Scale Simulation using Parallel GENESIS - Nigel H. Goddard and Greg Hood

• chapt22.pdf - Advanced XODUS Techniques: Simulation Visualization - Upinder S. Bhalla

• fin.pdf - Includes appendices with script listings, bibliography and indices

For further information and downloads, see:

GENESIS WWW site: http://www.genesis-sim.org/GENESIS/
email: genesis@genesis-sim.org