CX3D: a java package for simulation of cortical development in 3D
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1
Institute of Neuroinformatics, Switzerland
Many interesting models of neural growth simulation have been proposed (1). But in order to fully explore the self-organization principles involved in coticogenesis, we need an environment capable of modeling the physics of the developing tissue, including diffusion of chemicals and mechanical interactions between cells. We present CX3D, a java package for simulation of cortical development in 3D space. Neurons are represented by discrete spherical (soma) and cylindrical (neurite) elements conferring them their mechanical properties (diameter, mass, friction etc.). In addition, the diffusion of substances throughout the extracellular matrix can be simulated. Beside the implementation of these physical processes, biological markers that guide neuronal growth can be specified both at the cell level and locally (e.g. specific receptors on a particular branch). With CX3D, we are able to simulate different stages of cortical formation such as division of progenitor cells, formation of distinct populations of different cell types, migration of neuronal precursors to form the cortical laminae, extension of axons and dendrites and synapse formation.
This work was supported by the EU grant "SECO" 216593.
References
1. Modelling neural development, van Ooyen editor, MIT press
Conference:
Neuroinformatics 2008, Stockholm, Sweden, 7 Sep - 9 Sep, 2008.
Presentation Type:
Oral Presentation
Topic:
Live Demonstrations
Citation:
Zubler
F and
Douglas
R
(2008). CX3D: a java package for simulation of cortical development in 3D.
Front. Neuroinform.
Conference Abstract:
Neuroinformatics 2008.
doi: 10.3389/conf.neuro.11.2008.01.127
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Received:
28 Jul 2008;
Published Online:
28 Jul 2008.
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Correspondence:
Frédéric Zubler, Institute of Neuroinformatics, Zürich, Switzerland, frederic.zubler@gmail.com