University of Rostock

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neuroVIISAS




             neuroVIISAS (neuro Visualization, Imagemapping, Information System for Analysis and Simulation)
             is an open framework for integrative data analysis, visualization and population simulations.

neuroVIISAS provides answers to questions like:
  1. How can we assemble data of tract-tracing studies? (Metastudy)
  2. Is it possible to integrate tract-tracing and brainmapping data? (Data Integration)
  3. How does the network of analyzed tract-tracing studies looks like? (Visualization)
  4. Which graph theoretical properties possess such a network? (Analysis)
  5. Can we perform population simulations in a connectome that is based on the collation of tract-tracing data ( meta-analysis) from tract-tracing studies? (Simulation and higher level data integration)
neuroVIISAS can be used to organize mapping and connectivity data of central and peripheral nervous systems of any species. In neuroVIISAS monosynaptic connections, polysynaptic pathway data and axonal colateral data can be integrated into connectome analysis. The rat brain project of neuroVIISAS contains 450237 ipsi- and 175654 contralateral connections. Publications which describe results of tract tracing experiments in rats were searched in PubMedGoogle Scholar and Web of Science. A very general search term was applied to identify 14300 papers, thesis and book chapters which could contain experimental observations of anterograde, retrograde and transsynaptic neuronal tracers. Connectivity information was collated from 6183 publications. So far, 7185 of the 14300 npublications do not contain suitable information of tract tracing experiments in neonatal, young and adult rats. The complete list of filtered publications can be found here (38.7MB) or as a bibtex fie  (37.8MB).

To get an idea of some of neuroVIISAS key properties take a tour through some screenshots of neuroVIISAS.

And here are the latest visualizations from ongoing projects.

Simulation (opening this page may take a while because gif-animations are directly loaded) of the left hemispheric amygdala neuron populations of the rat brain.

Versions
For Windows 32 bit Net.Framework 3.5 is required!
For Windows 64 bit Net.Framework 4.0 and the Microsoft Visual C++ 2010 Redistributable Package (x64) are required!

Versions 0.303 and higher include a virtual slide viewer. To use it under linux the OpenSlide libraries must be installed.

Webstart of NeuroVIISAS


PyNEST script generation does work using WINDOWS OS, however, the script must be transferred to a UNIX OS with installed NEST. The results file of the NEST simulation can be visualized and analyzed by neuroVIISAS on a WINDOWS OS.

Data sets that can be directly opened in neuroVIISAS (*,brain format) are available here.
Test data (5.5 MB): neuroVIISAS-testproject.zip

If you like to see your tract-tracing data in the rat connectome project in neuroVIISAS then mail your article to


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