Journal Article

FZJ-2019-03520

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Open Source Brain: A Collaborative Resource for Visualizing, Analyzing, Simulating, and Developing Standardized Models of Neurons and Circuits

Gleeson, P. ; Cantarelli, M. ; Marin, B. ; Quintana, A. ; Earnshaw, M. ; Sadeh, S. ; Piasini, E. ; Birgiolas, J. ; Cannon, R. C. ; Cayco-Gajic, N. A. ; Crook, S. ; Davison, A. P. ; Dura-Bernal, S. ; Ecker, A. ; Hines, M. L. ; Idili, G. ; Lanore, F. ; Larson, S. D. ; Lytton, W. W. ; Majumdar, A. ; McDougal, R. A. ; Sivagnanam, S. ; Solinas, S. ; Stanislovas, R. ; van Albada, S.FZJ* ; van Geit, W. ; Silver, R. A. (Corresponding author)

2019
Elsevier New York, NY

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Please use a persistent id in citations: http://hdl.handle.net/2128/23045  doi:10.1016/j.neuron.2019.05.019

Abstract: Computational models are powerful tools for exploring the properties of complex biological systems. In neuroscience, data-driven models of neural circuits that span multiple scales are increasingly being used to understand brain function in health and disease. But their adoption and reuse has been limited by the specialist knowledge required to evaluate and use them. To address this, we have developed Open Source Brain, a platform for sharing, viewing, analyzing, and simulating standardized models from different brain regions and species. Model structure and parameters can be automatically visualized and their dynamical properties explored through browser-based simulations. Infrastructure and tools for collaborative interaction, development, and testing are also provided. We demonstrate how existing components can be reused by constructing new models of inhibition-stabilized cortical networks that match recent experimental results. These features of Open Source Brain improve the accessibility, transparency, and reproducibility of models and facilitate their reuse by the wider community.

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Contributing Institute(s):

1. Computational and Systems Neuroscience (INM-6)
2. Theoretical Neuroscience (IAS-6)
3. Jara-Institut Brain structure-function relationships (INM-10)

Research Program(s):

1. 574 - Theory, modelling and simulation (POF3-574) (POF3-574)
2. HBP SGA1 - Human Brain Project Specific Grant Agreement 1 (720270) (720270)
3. HBP - The Human Brain Project (604102) (604102)
4. HBP - Human Brain Project (284941) (284941)

Appears in the scientific report 2019

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Database coverage:
; ; ; BIOSIS Previews ; Clarivate Analytics Master Journal List ; Current Contents - Life Sciences ; Ebsco Academic Search ; IF >= 10 ; JCR ; NCBI Molecular Biology Database ; Nationallizenz ; SCOPUS ; Science Citation Index ; Science Citation Index Expanded ; Web of Science Core Collection

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