Brain simulation as a cloud service: The Virtual Brain on EBRAINS

被引：40

作者：

Schirner, Michael ^{[1
,2
,3
,4
,5
,6
,7
]}

Domide, Lia ^{[8
]}

Perdikis, Dionysios ^{[1
,2
,3
,4
]}

Triebkorn, Paul ^{[1
,2
,3
,4
,9
]}

Stefanovski, Leon ^{[1
,2
,3
,4
]}

Pai, Roopa ^{[1
,2
,3
,4
]}

Prodan, Paula ^{[8
]}

Valean, Bogdan ^{[8
]}

Palmer, Jessica ^{[1
,2
,3
,4
]}

Langford, Chloe ^{[1
,2
,3
,4
]}

Blickensdoerfer, Andre ^{[1
,2
,3
,4
]}

van der Vlag, Michiel ^{[10
]}

Diaz-Pier, Sandra ^{[10
]}

Peyser, Alexander ^{[10
]}

Klijn, Wouter ^{[10
]}

Pleiter, Dirk ^{[11
,12
]}

Nahm, Anne ^{[11
]}

Schmid, Oliver ^{[13
]}

Woodman, Marmaduke ^{[9
]}

Zehl, Lyuba ^{[14
]}

Fousek, Jan ^{[9
]}

Petkoski, Spase ^{[9
]}

Kusch, Lionel ^{[9
]}

Hashemi, Meysam ^{[9
]}

Marinazzo, Daniele ^{[15
,16
]}

Mangin, Jean-Francois ^{[17
]}

Floeel, Agnes ^{[18
,19
]}

Akintoye, Simisola ^{[20
]}

Stahl, Bernd Carsten ^{[21
]}

Cepic, Michael ^{[22
]}

Johnson, Emily ^{[22
]}

Deco, Gustavo ^{[23
,24
,25
,26
]}

McIntosh, Anthony R. ^{[27
]}

Hilgetag, Claus C. ^{[28
,29
]}

Morgan, Marc ^{[13
]}

Schuller, Bernd ^{[11
]}

Upton, Alex ^{[30
]}

McMurtrie, Colin ^{[30
]}

Dickscheid, Timo ^{[14
]}

Bjaalie, Jan G. ^{[31
]}

Amunts, Katrin ^{[14
,32
]}

Mersmann, Jochen ^{[33
]}

Jirsa, Viktor ^{[9
]}

Ritter, Petra ^{[1
,2
,3
,4
,5
,6
,7
]}

机构：

[1] Univ Med Berlin, Berlin Inst Hlth Charite, Charitepl 1, D-10117 Berlin, Germany

[2] Charite Univ Med Berlin, Charitepl 1, D-10117 Berlin, Germany

[3] Free Univ Berlin, Charitepl 1, D-10117 Berlin, Germany

[4] Humboldt Univ, Dept Neurol Expt Neurol, Charitepl 1, D-10117 Berlin, Germany

[5] Bernstein Focus State Dependencies Learning & Ber, Berlin, Germany

[6] Einstein Ctr Neurosci Berlin, Charitepl 1, D-10117 Berlin, Germany

[7] Einstein Ctr Digital Future, Wilhelmstr 67, D-10117 Berlin, Germany

[8] Codemart, Str Petofi Sandor, Cluj Napoca, Napoca, Romania

[9] Aix Marseille Univ, Inst Neurosci Syst, Marseille, France

[10] Forschungszentrum Julich, Inst Adv Simulat, SimLab Neurosci, Julich Supercomp Ctr JSC,JARA, Julich, Germany

[11] Forschungszentrum Julich, Julich Supercomp Ctr, Julich, Germany

[12] Univ Regensburg, Inst Theoret Phys, Regensburg, Germany

[13] Swiss Fed Inst Technol Lausanne EPFL, Campus Biotech, Geneva, Switzerland

[14] Res Ctr Julich, Inst Neurosci & Med INM 1, Julich, Germany

[15] Univ Ghent, Fac Psychol & Educ Sci, Dept Data Anal, Ghent, Belgium

[16] San Camillo IRCSS, Venice, Italy

[17] Univ Paris Saclay, Baobab, Neurospin, CNRS, Gif Sur Yvette, France

[18] Univ Med Greifswald, Dept Neurol, Greifswald, Germany

[19] German Ctr Neurodegenerat Dis DZNE Standort Greif, Greifswald, Germany

[20] De Montfort Univ, Leicester Montfort Law Sch, Leicester, Leics, England

[21] De Montfort Univ, Ctr Comp & Social Responsibil, Leicester, Leics, England

[22] Univ Vienna, Fac Law, Dept Innovat & Digitalisat Law, Vienna, Austria

[23] Univ Pompeu Fabra, Ctr Brain & Cognit, Dept Informat & Commun Technol, Computat Neurosci Grp, Barcelona, Spain

[24] Inst Catalana Recerca & Estudis Avancats, Barcelona, Spain

[25] Max Planck Inst Human Cognit & Brain Sci, Dept Neuropsychol, Leipzig, Germany

[26] Monash Univ, Sch Psychol Sci, Turner Inst Brain & Mental Hlth, Clayton, Vic, Australia

[27] Baycrest Hlth Sci, Rotman Res Inst, Toronto, ON, Canada

[28] Univ Med Ctr Hamburg Eppendorf, Inst Computat Neurosci, Hamburg, Germany

[29] Boston Univ, Dept Hlth Sci, 635 Commonwealth Ave, Boston, MA 02215 USA

[30] CSCS Swiss Natl Supercomp Ctr, Lugano, Switzerland

[31] Univ Oslo, Inst Basic Med Sci, Oslo, Norway

[32] Heinrich Heine Univ Dusseldorf, Univ Hosp Dusseldorf, C&O Vogt Inst Brain Res, Dusseldorf, Germany

[33] CodeBox GmbH, Stuttgart, Germany

来源：

NEUROIMAGE | 2022年 / 251卷

基金：

欧盟地平线“2020”;

关键词：

Brain modelling; Cloud; Connectome; Neuroimaging; Network model; High performance computing; Reproducibility; Data protection; REPRODUCIBILITY; CONNECTOME; ATLAS; SPACE;

D O I：

10.1016/j.neuroimage.2022.118973

中图分类号：

Q189 [神经科学];

学科分类号：

071006 ;

摘要：

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.

引用

页数：11

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