Toward a Virtual Brain Laboratory: Applications of NETMORPH
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Fatronik-Tecnalia Foundation, Neuroengineering, Spain
At last year's Neuroinformatics congress, Frank Postma, Randal A. Koene, Jaap van Pelt and Arjen van Ooyen presented the new simulation framework for the developmental generation of 3D large-scale neuronal networks with realistic neuron morphologies – NETMORPH. The framework includes simulation of neuronal morphogenesis and synapse formation from the perspective of individual growth cones. Generated neuron morphology has been validated for a number of characteristic neuron types, including pyramidal neurons.
This presentation addresses the use of NETMORPH as a versatile tool in a growing virtual brain laboratory. Such a virtual brain laboratory should provide to neuroengineers, neuroscientists and neurologists quantitative computational tools that are in their utility analogous to the computational tools for analysis and design that are already available to chemists, astronomers and aerospace engineers.
Specific applications of the NETMORPH tool are demonstrated for the following:
Teaching: Simulated neuronal network development.
Neuroscience: Simulation and analysis of the development of networks of cultured neurons.
Neuroscience: Simulation and analysis of the development of layered networks in 3D (e.g. neocortical minicolumns).
Neuroscience: Simulated spatial deformation of neuronal networks in 3D.
Neuroscience: Simulated activity in neuronal networks at different stages of development.
Neuroscience: Generating histological phantom data with the SLICE module.
Neuroscience: Simulated patch clamp experiments.
Neuroscience: Simulated recording/stimulating with electrodes in situ.
Neuropharmacology: Studying spatial effects in the function of localized G-protein coupled receptors.
Neural Engineering: Emulated signal acquisition through simulated multi-electrode neural interface.
Neural Engineering: Emulated recording/stimulation with a neural probe (electric, thermal, magenetic fields).
Neural Engineering: Emulated surface recordings and virtual electroencephalography (EEG) (electric and magnetic fields).
Neurology: Simulated lesions in neurosurgery.
Neurology: Simulated morphological effects of brain diseases and disorders.
Neurology: Emulated recording of (travelling wave) functional magnetic resonance imaging (fMRI) activity.
The NETMORPH Core is available as free software at http://netmorph.org
Conference:
Neuroinformatics 2009, Pilsen, Czechia, 6 Sep - 8 Sep, 2009.
Presentation Type:
Oral Presentation
Topic:
Computational neuroscience
Citation:
Koene
R
(2019). Toward a Virtual Brain Laboratory: Applications of NETMORPH.
Front. Neuroinform.
Conference Abstract:
Neuroinformatics 2009.
doi: 10.3389/conf.neuro.11.2009.08.107
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Received:
25 May 2009;
Published Online:
09 May 2019.
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Correspondence:
Randal Koene, Fatronik-Tecnalia Foundation, Neuroengineering, San Sebastian, Spain, randal.a.koene@gmail.com