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Tytuł:
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Brain simulation as a cloud service: The Virtual Brain on EBRAINS.
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Autorzy:
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Schirner M; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany; Bernstein Focus State Dependencies of Learning & Bernstein Center for Computational Neuroscience Berlin, Germany; Einstein Center for Neuroscience Berlin, Charitéplatz 1, 10117 Berlin, Germany; Einstein Center Digital Future, Wilhelmstraße 67, 10117 Berlin, Germany. Electronic address: .
Domide L; Codemart, Str. Petofi Sandor, Cluj, Napoca, Romania.
Perdikis D; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
Triebkorn P; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Stefanovski L; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
Pai R; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
Prodan P; Codemart, Str. Petofi Sandor, Cluj, Napoca, Romania.
Valean B; Codemart, Str. Petofi Sandor, Cluj, Napoca, Romania.
Palmer J; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
Langford C; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
Blickensdörfer A; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany.
van der Vlag M; SimLab Neuroscience, Jülich Supercomputing Centre (JSC), Institute for Advanced Simulation, JARA, Forschungszentrum Jülich GmbH, Jülich, Germany.
Diaz-Pier S; SimLab Neuroscience, Jülich Supercomputing Centre (JSC), Institute for Advanced Simulation, JARA, Forschungszentrum Jülich GmbH, Jülich, Germany.
Peyser A; SimLab Neuroscience, Jülich Supercomputing Centre (JSC), Institute for Advanced Simulation, JARA, Forschungszentrum Jülich GmbH, Jülich, Germany.
Klijn W; SimLab Neuroscience, Jülich Supercomputing Centre (JSC), Institute for Advanced Simulation, JARA, Forschungszentrum Jülich GmbH, Jülich, Germany.
Pleiter D; Jülich Supercomputer Centre, Forschungszentrum Jülich, Jülich, Germany; Institut für Theoretische Physik, Universität Regensburg, Regensburg, Germany.
Nahm A; Jülich Supercomputer Centre, Forschungszentrum Jülich, Jülich, Germany.
Schmid O; Swiss Federal Institute of Technology Lausanne (EPFL), Campus Biotech, Geneva, Switzerland.
Woodman M; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Zehl L; Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Jülich, Germany.
Fousek J; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Petkoski S; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Kusch L; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Hashemi M; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Marinazzo D; Department of Data-Analysis, Faculty of Psychology and Educational Sciences, Ghent University, Belgium; San Camillo IRCSS, Venice, Italy.
Mangin JF; Université Paris-Saclay, CEA, CNRS, Neurospin, Baobab, Gif-sur-Yvette, France.
Flöel A; Department of Neurology, University Medicine Greifswald, Greifswald, Germany; German Center for Neurodegenerative Diseases (DZNE) Standort Greifswald, Greifswald, Germany.
Akintoye S; Leicester De Montfort Law School, De Montfort University, Leicester, United Kingdom.
Stahl BC; Centre for Computing and Social Responsibility, De Montfort University, Leicester, United Kingdom.
Cepic M; Department of Innovation and Digitalisation in Law, Faculty of Law, University of Vienna, Austria.
Johnson E; Department of Innovation and Digitalisation in Law, Faculty of Law, University of Vienna, Austria.
Deco G; Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Communication Technologies, Universitat Pompeu Fabra, Barcelona, Spain; Institució Catalana de la Recerca i Estudis Avançats, Barcelona, Spain; Department of Neuropsychology, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany; School of Psychological Sciences, Turner Institute for Brain and Mental Health, Monash University, Melbourne, Clayton, Australia.
McIntosh AR; Baycrest Health Sciences, Rotman Research Institute, Toronto, ON, Canada.
Hilgetag CC; Institute of Computational Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg, Germany; Department of Health Sciences, Boston University, 635 Commonwealth Ave., Boston, Massachusetts 02215, United States.
Morgan M; Swiss Federal Institute of Technology Lausanne (EPFL), Campus Biotech, Geneva, Switzerland.
Schuller B; Jülich Supercomputer Centre, Forschungszentrum Jülich, Jülich, Germany.
Upton A; CSCS Swiss National Supercomputing Centre, Lugano, Switzerland.
McMurtrie C; CSCS Swiss National Supercomputing Centre, Lugano, Switzerland.
Dickscheid T; Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Jülich, Germany.
Bjaalie JG; Institute of Basic Medical Sciences, University of Oslo, Norway.
Amunts K; Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Jülich, Germany; C. and O. Vogt Institute for Brain Research, University Hospital Düsseldorf, Heinrich-Heine University Düsseldorf, Germany.
Mersmann J; CodeBox GmbH, Stuttgart, Germany.
Jirsa V; Institut de Neurosciences des Systèmes, Aix Marseille Université, Marseille, France.
Ritter P; Berlin Institute of Health at Charité, Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin and Humboldt Universität zu Berlin, Department of Neurology with Experimental Neurology, Charitéplatz 1, 10117 Berlin, Germany; Bernstein Focus State Dependencies of Learning & Bernstein Center for Computational Neuroscience Berlin, Germany; Einstein Center for Neuroscience Berlin, Charitéplatz 1, 10117 Berlin, Germany; Einstein Center Digital Future, Wilhelmstraße 67, 10117 Berlin, Germany. Electronic address: .
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Źródło:
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NeuroImage [Neuroimage] 2022 May 01; Vol. 251, pp. 118973. Date of Electronic Publication: 2022 Feb 04.
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Typ publikacji:
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Journal Article; Research Support, Non-U.S. Gov't
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Język:
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English
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Imprint Name(s):
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Original Publication: Orlando, FL : Academic Press, c1992-
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MeSH Terms:
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Brain*/diagnostic imaging
Cloud Computing*
Animals ; Bayes Theorem ; Computer Simulation ; Humans ; Magnetic Resonance Imaging/methods ; Mice ; Software
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Contributed Indexing:
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Keywords: Brain modelling; Cloud; Connectome; Data protection; High performance computing; Network model; Neuroimaging; Reproducibility
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Entry Date(s):
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Date Created: 20220208 Date Completed: 20220330 Latest Revision: 20220401
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Update Code:
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20240104
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DOI:
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10.1016/j.neuroimage.2022.118973
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PMID:
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35131433
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The Virtual Brain (TVB) is now available as open-source services on the cloud research platform EBRAINS (ebrains.eu). It offers software for constructing, simulating and analysing brain network models including the TVB simulator; magnetic resonance imaging (MRI) processing pipelines to extract structural and functional brain networks; combined simulation of large-scale brain networks with small-scale spiking networks; automatic conversion of user-specified model equations into fast simulation code; simulation-ready brain models of patients and healthy volunteers; Bayesian parameter optimization in epilepsy patient models; data and software for mouse brain simulation; and extensive educational material. TVB cloud services facilitate reproducible online collaboration and discovery of data assets, models, and software embedded in scalable and secure workflows, a precondition for research on large cohort data sets, better generalizability, and clinical translation.
Competing Interests: Declaration of competing interests The authors declare no competing interests.
(Copyright © 2022 The Author(s). Published by Elsevier Inc. All rights reserved.)
