Multiscale cosimulation design template for neuroscience applications
bioRxiv (Cold Spring Harbor Laboratory)
Abstract
Abstract Integration of information across heterogeneous sources creates added scientific value. It is, however, a challenge to progress, often a barrier, to interoperate data, tools and models across spatial and temporal scales. Here we present a design template for coupling simulators operating at different scales and enabling co-simulation. We illustrate its functioning along a neuroscience example, in which individual regions of interest are simulated on the cellular level to address mechanistic questions, while the remaining network is efficiently simulated on the population level. A workflow is illustrated for the use case of The Virtual Brain and NEST, in which the cellular-level hippocampus of the mouse is embedded into a full brain network involving micro and macro electrode recordings. This new tool allows integrating knowledge across scales in the same simulation framework and validate them against multiscale experiments, thereby largely widening the explanatory power of computational models.
Authors 7
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Aix-Marseille Université · Institut de Neurosciences des Systèmes
Affiliation as printed
Institut de Neurosciences des Systèmes (INS) UMR1106, Aix-Marseille Univ
Institut de Neurosciences des Systèmes (INS) UMR06, Aix-Marseille Univ., Marseilles, 3005, France
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Forschungszentrum Jülich · Jülich Aachen Research Alliance · Jülich Supercomputing Centre
Affiliation as printed
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA, Jülich, 545, Germany
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Forschungszentrum Jülich · Jülich Aachen Research Alliance · Jülich Supercomputing Centre
Affiliation as printed
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA, Jülich, 545, Germany
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Forschungszentrum Jülich · Jülich Aachen Research Alliance · Jülich Supercomputing Centre
Affiliation as printed
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA, Jülich, 545, Germany
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Aix-Marseille Université · Institut de Neurosciences des Systèmes
Affiliation as printed
Institut de Neurosciences des Systèmes (INS) UMR1106, Aix-Marseille Univ
Institut de Neurosciences des Systèmes (INS) UMR06, Aix-Marseille Univ., Marseilles, 3005, France
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Forschungszentrum Jülich · Jülich Aachen Research Alliance · Jülich Supercomputing Centre · RWTH Aachen University
Affiliation as printed
Computer Science 3 - Software Engineering, RWTH Aachen University
Forschungszentrum Jülich GmbH, IAS-6/INM-6, JARA
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA
Computer Science 3 - Software Engineering, RWTH Aachen University, Aachen, 52062, Germany
Forschungszentrum Jülich GmbH, IAS-6/INM-6, JARA, Jülich, 52425, Germany
Forschungszentrum Jülich GmbH, Institute for Advanced Simulation, Jülich Supercomputing Centre (JSC), Simulation and Data Laboratory Neuroscience, JARA, Jülich, 545, Germany
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Viktor Jirsa corresponding
Aix-Marseille Université · Institut de Neurosciences des Systèmes
Affiliation as printed
Institut de Neurosciences des Systèmes (INS) UMR1106, Aix-Marseille Univ
Institut de Neurosciences des Systèmes (INS) UMR06, Aix-Marseille Univ., Marseilles, 3005, France
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