Short description

The idea for the development of NeuGen has been to simulate networks of synaptically connected neurons in a cortical column.

This project is mainly a result of the fact that experimental data is available nowadays to extract the anatomical fingerprints of the cells and to generate synthetic neuron geometries.

Key features

  • NeuGen is a tool for the efficient generation and description of dendritic and axonal morphology of realistic neurons and neural networks in 3D.
  • NeuGen builds real neural network geometries.
  • NeuGen is based on experimental data. The 'in silico' neurons are based on cells of cortical columns in the neocortex.
  • NeuGen generates
    • L4 spiny stellate neurons
    • L2/3 pyramidal cells
    • L5A and L5B pyramidal cells
    • L4 star pyramidal cells
    • CA1 pyramidal cells
    • CA1 interneurons (PV, CB, CR, SOM, CCK)
  • NeuGen creates synapses by distributions and/or distance. It uses the NetCon class of NEURON to create an interface to the simulation program.
  • The interconnection is made due to realistic connectivity patterns in a cortical column found by experiments.
  • Generated networks can be visualized via the NeuGen.
  • Output can be generated for NEURON via HOC files.
  • Implementation of a multi-compartmental model from the ModelDB to simulate directly the generated networks with NEURON.
    • Model from Mainen & Sejnowski, Nature 382 (1996), with fast active channels in soma and axon, and slow active currents in dendrites. NeuGen generates uniform distributions of channels.