Quantitative Neuroanatomy Tools

October 11-12, 2001

Netherlands Institute for Brain Research
Amsterdam, The Netherlands




Supported by: Objectives:

This workshop will discuss recent advances in neuroinformatics tools for three-dimensional reconstruction of neuronal arborizations, quantification and analysis of neuronal shapes, modeling neuronal morphological complexity, and experimental approaches to resolving neural circuits. Emphasis will be given to new developments in digital image analysis procedures, user interfaces, and neuro-informatics data-bases. The workshop aims at bringing together neuroscientists (both experimental and computational), information technologists and any other researcher interested in Quantitative Neuroanatomy. The workshop contributes to the primary objective of the EU-Thematic Network Computational Neuroscience and Neuroinformatics to promote the field of Computational Neuroscience and Neuroinformatics and to start building an European Neuroinformatics Infrastructure.


The meeting will be organized in a workshop style with emphasis on presentations from invited speakers and open discussions on emerging topics.



Thursday, October 11, 2001

9.00 Opening
Jaap van Pelt

9.10 - 10.40 Three-dimensional neuronal reconstruction

9.10 - Jan Bjaalie (Oslo, Norway)
Neuron reconstruction systems (serial reconstruction of brain regions,
cell populations, and neuronal arborisations)

9.55 - Paul Gogan, Suzanne Tyc-Dumont (Marseille, France)
Morphological noise in the reconstruction of 3D dendritic arborisations

10.40 - 11.10 Coffee Break

11.10 - 12.40 Digital image acquisition, processing and 3D reconstruction

11.10 - Hans van der Voort (Amsterdam, The Netherlands)
user interfaces - deconvolution - visualisation of
branching threadlike objects in 3D

11.55 - Chris Pool (Amsterdam, The Netherlands)
Segmentation and reconstruction of cultured neurons in 2D images

12.40 - 13.40 Lunch Break

13.40 - Geert Streekstra (Amsterdam, The Netherlands)
New developments in image analysis - automatic tracing of
branching thread-like objects in 3D

14.25 - Michael Scholz (Berlin, Germany)
Automatic 3D reconstruction of neurons from confocal data

15.10 - 15.30 Tea Break

15.30 - 17.00 Quantification and diversity in neuronal branching patterns

15.30 - Harry B.M. Uylings (Amsterdam, The Netherlands)
Measures to quantify dendritic arborizations

16.15 - Robert Cannon (Marseille, France)
On-line archiving reconstructed neurons and cell type quantification

17.00 Discussion

Friday, October 12, 2001

9.00 - 12.20 Modeling neuronal morphology

9.00 - Luciano da Fontoura Costa (Sao Paulo, Brazil)
Differential geometry approaches in analysing neuronal shape

9.45 - Giorgio Ascoli (Fairfax, USA)
L-neuron, modeling dendritic morphology

10.30 - 10.50 Coffee Break

10.50 - Jaap van Pelt (Amsterdam, The Netherlands)
Growth models for dendritic arborizations

11.35 - Arjen van Ooyen (Amsterdam, The Netherlands)
Modeling intracellular mechanisms in neurite outgrowth and

12.20 - 13.20 Lunch Break

13.20 - 14.50 Tools for revealing anatomical networks

13.20 - Floris Wouterlood, Henk Groenewegen (Amsterdam, The Netherlands)
Tracing tools to resolve neural circuits

14.05 - Ger Ramakers (Amsterdam, The Netherlands)
Anatomy and electrophysiology of developing neuronal networks in vitro -
multiple markers and multielectrode arrays

14.50 - Discussion

16.00 - Closure



If you are reading this from the neuroinf.org website, please push the blue 'logon' button.

Others: go to the site of the Thematic Network Neuroinformatics www.neuroinf.org and
push the 'logon' or 'workshops' button.

Via the Registration site, you are requested to give a short outline of your field of interest.
Additionally, you are invited to suggest topics for the open discussion session.

The venue sets an upper limit to the number of participants.
Late registrations may therefore run the risk of not being honoured.



Travel and local map:

Netherlands Institute for Brain Research (NIBR)
Meibergdreef 33, 1105 AZ Amsterdam, The Netherlands
Tel. +31 20 5665500; Fax. +31 20 6961006

Go to map for the location of the NIBR as well as local travel information


For information on accomodation and on hotel reservation in the city of Amsterdam,
the following WEBsites can be visited:
Amsterdam Hotel Guide , Bookings NL , Hotelres.nl and HotelNet Nederland .

Tourist information:

The following sites are recommended:
VisitAmsterdam , The Internet Guide to Amsterdam , Excite Travel Amsterdam and Amsterdam.nl


Last update: September 10, 2001