NEUROSCIENCE DATABASES

A Practical Guide

edited by
Rolf Kötter
Heinrich Heine University Düsseldorf,
Düsseldorf, Germany
 
KLUWER ACADEMIC PUBLISHERS
Boston / Dordrecht / London

Published in October 2002


 

1

Neuroinformatics for C. elegans: Relating Mind and Body in Wormbase

1

 

Nansheng Chen, Raymond Y.N. Lee, Zeynep F. Altun, Thomas Boulin, Paul W. Sternberg, and Lincoln D. Stein

 

2

A Gene Expression Map of the Mouse Brain. Genepaint.org - A Database of Gene Expression Patterns

19

 

Axel Visel, Jamila Ahdidan, and Gregor Eichele

 

3

Databases for the Functional Analyses of Olfactory Receptors

37

 

Chiquito J. Crasto, Nian Liu, and Gordon M. Shepherd

 

4

Construction of a Protein-Protein Interaction Database (PPID) for Synaptic Biology

51

 

Holger Husi and Seth G.N. Grant

 

5

Modeling the Dynamics of Second Messenger Pathways

63

 

Kim T. Blackwell and Jeanette Hellgren Kotaleski

 

6

Web-Based Neuronal Archives. Neuronal Morphometric and Electrotonic Analysis

81

 

Dennis A. Turner, Robert C. Cannon, and Giorgio A. Ascoli

 

7

ModelDB: A Resource for Neuronal and Network Modeling

99

 

Andrew P. Davison, Thomas M. Morse, Michele Migliore, Luis Marenco, Gordon M. Shepherd, and Michael L. Hines

 

8

CoCoDat: Collation of Cortical Data on Neurons and Microcircuitry. Systematic Storage and Retrieval of Experimental Data for Biophysically Realistic Modeling

111

 

Jonas D.-Johnsen, Jürgen Maier, Klaas E. Stephan, and Rolf Kötter

 

9

Computer Models and Analysis Tools for Neural Microcircuits

123

 

Thomas Natschläger, Henry Markram, and Wolfgang Maass

 

10

A Practical Guide to Information Analysis of Spike Trains

139

 

Gianni Pola, Simon R. Schultz, Rasmus S. Petersen, and Stefano Panzeri

 

11

An Introduction to CoCoMac-Online. The Online-Interface of the Primate Connectivity Database CoCoMac

155

 

Lars Kamper, Ahmet Bozkurt, Konrad Rybacki, Andreas Geissler, Ina Gerken, Klaas E. Stephan, and Rolf Kötter

 

12

Graph Theory Methods for the Analysis of Neural Connectivity Patterns

171

 

Olaf Sporns

 

13

The PUPS-MOSIX Environment: A Homeostatic Environment for Neuro- and Bio-informatic Applications

187

 

Mark A. O'Neill, Gully A.P.C Burns, and Claus C. Hilgetag

 

14

The NeuroHomology Database: An Online-KMS for Handling and Evaluation of the Neurobiological Information

203

 

Mihail Bota and Michael A. Arbib

 

15

The fMRI Data Center: Software Tools for Neuroimaging Data Management, Inspection, and Sharing

221

 

John Darrell Van Horn, Jeffrey B. Woodward, Geoffrey Simonds, Bennet Vance, Jeffrey S. Grethe, Mark Montague, Javed Aslam, Daniela Rus, Daniel Rockmore, and Michael S. Gazzaniga

 

16

Statistical Parametric Mapping

237

 

Karl J. Friston

 

17

The Brain Positioning Software

251

 

Volker Schmitt, Andrzej Wichert, Jo Grothe, and Friedrich T. Sommer

 

18

BrainInfo. An Online Interactive Brain Atlas and Nomenclature

259

 

Douglas M. Bowden and Mark Dubach

 

19

Federation of Brain Data through Knowledge-guided Mediation

275

 

Maryann E. Martone, Amarnath Gupta, Bertram Ludäscher, Ilya Zaslavsky, and Mark H. Ellisman

 

20

Facilitating Data and Software Sharing in the Neurosciences - A Neuroinformatics Portal

293

 

Raphael Ritz, Rainer Förster, and Andreas V.M. Herz