Journal Article

FZJ-2021-05425

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png ConGen a simulator-agnostic visual language for definition and generation of connectivity in large and multiscale neural networks

Herbers, P.FZJ* ; Calvo, I. ; Diaz, S. (Corresponding author)FZJ* ; Robles Sanchez, O. D. ; Mata, S. ; Toharia, P. ; Pastor, L. ; Peyser, A.FZJ* ; Morrison, A.FZJ* ; Klijn, W. (Corresponding author)FZJ*

2022
Frontiers Research Foundation Lausanne

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Please use a persistent id in citations: http://hdl.handle.net/2128/30046  doi:10.3389/fninf.2021.766697

Abstract: An open challenge on the road to unraveling the brain's multilevel organization is establishing techniques to research connectivity and dynamics at different scales in time and space, as well as the links between them. This work focuses on the design of a framework that facilitates the generation of multiscale connectivity in large neural networks using a symbolic visual language capable of representing the model at different structural levels—ConGen. This symbolic language allows researchers to create and visually analyze the generated networks independently of the simulator to be used, since the visual model is translated into a simulator-independent language. The simplicity of the front end visual representation, together with the simulator independence provided by the back end translation, combine into a framework to enhance collaboration among scientists with expertise at different scales of abstraction and from different fields. On the basis of two use cases, we introduce the features and possibilities of our proposed visual language and associated workflow. We demonstrate that ConGen enables the creation, editing, and visualization of multiscale biological neural networks and provides a whole workflow to produce simulation scripts from the visual representation of the model.

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Contributing Institute(s):

1. Jülich Supercomputing Center (JSC)
2. Computational and Systems Neuroscience (INM-6)
3. Computational and Systems Neuroscience (IAS-6)
4. Jara-Institut Brain structure-function relationships (INM-10)

Research Program(s):

1. 5111 - Domain-Specific Simulation & Data Life Cycle Labs (SDLs) and Research Groups (POF4-511) (POF4-511)
2. SLNS - SimLab Neuroscience (Helmholtz-SLNS) (Helmholtz-SLNS)
3. JL SMHB - Joint Lab Supercomputing and Modeling for the Human Brain (JL SMHB-2021-2027) (JL SMHB-2021-2027)
4. HBP SGA2 - Human Brain Project Specific Grant Agreement 2 (785907) (785907)
5. HBP SGA3 - Human Brain Project Specific Grant Agreement 3 (945539) (945539)
6. 5234 - Emerging NC Architectures (POF4-523) (POF4-523)

Appears in the scientific report 2022

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