University of Rostock

Department of Anatomy

Neuroscience Group




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             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 have been integrated into connectome analysis. The rat brain project of neuroVIISAS contains 481284 ipsi- and 182693 contralateral multi-attributed (weighted, directed i.a.) 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 30539 papers, thesis and book chapters which could contain experimental observations of anterograde, retrograde and transsynaptic neuronal tracers. Connectivity information was extracted from 7765 publications. So far, 22774 of the 30539 publications do not contain suitable or duplicate information of tract-tracing experiments in neonatal, young and adult rats. The complete list of all filtered publications can be found here (82.2 MB) or as a bibtex file  (83.1 MB). The bibliographies include all references and duplicate references in additional citations formats. A preliminary bibliography of references which describe connections by applying tract-tracing methods is this
bibtex file (18.8 MB). New connectivity data are added to the connectome continously day by day.

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.

Installer for Windows, Linux and Mac OS can be downloaded here:

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!

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):

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

The installers of neuroVIISAS are build with the multi-platform installer builder install4j

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