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

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dc.contributor.authorSchirner, Michael
dc.contributor.authorDomide, Lia
dc.contributor.authorPerdikis, Dionysios
dc.contributor.authorTriebkorn, Paul
dc.contributor.authorStefanovski, Leon
dc.contributor.authorPai, Roopa
dc.contributor.authorProdan, Paula
dc.contributor.authorValean, Bogdan
dc.contributor.authorPalmer, Jessica
dc.contributor.authorLangford, Chloê
dc.contributor.authorBlickensdörfer, André
dc.contributor.authorVlag, Michiel van der
dc.contributor.authorDiaz-Pier, Sandra
dc.contributor.authorPeyser, Alexander
dc.contributor.authorKlijn, Wouter
dc.contributor.authorPleiter, Dirk
dc.contributor.authorNahm, Anne
dc.contributor.authorSchmid, Oliver
dc.contributor.authorWoodman, Marmaduke
dc.contributor.authorZehl, Lyuba
dc.contributor.authorFousek, Jan
dc.contributor.authorPetkoski, Spase
dc.contributor.authorKusch, Lionel
dc.contributor.authorHashemi, Meysam
dc.contributor.authorMarinazzo, Daniele
dc.contributor.authorMangin, Jean-François
dc.contributor.authorFlöel, Agnes
dc.contributor.authorAkintoye, Simisola
dc.contributor.authorStahl, Bernd Carsten
dc.contributor.authorCepic, Michael
dc.contributor.authorJohnson, Emily
dc.contributor.authorDeco, Gustavo
dc.contributor.authorMcIntosh, Anthony R.
dc.contributor.authorHilgetag, Claus C.
dc.contributor.authorMorgan, Marc Alard J.
dc.contributor.authorSchuller, Bernd
dc.contributor.authorUpton, Alex
dc.contributor.authorMcMurtrie, Colin
dc.contributor.authorDickscheid, Timo
dc.contributor.authorBjaalie, Jan G.
dc.contributor.authorAmunts, Katrin
dc.contributor.authorMersmann, Jochen
dc.contributor.authorJirsa, Viktor
dc.contributor.authorRitter, Petra
dc.date.accessioned2023-02-22T07:25:39Z
dc.date.available2023-02-22T07:25:39Z
dc.date.issued2022
dc.description.abstractThe 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.
dc.description.sponsorshipWe acknowledge support by H2020 Research and Innovation Action grants Human Brain Project SGA2 785907, SGA3 945539, ICEI 800858, VirtualBrainCloud 826421 and ERC 683049; Berlin Institute of Health & Foundation Charité, Johanna Quandt Excellence Initiative. Several computations have also been performed on the HPC for Research cluster of the Berlin Institute of Health. We acknowledge the use of Fenix Infrastructure resources, which are partially funded from the European Union's Horizon 2020 research and innovation programme through the ICEI project under the grant agreement No. 800858. German Research Foundation SFB 1436 (project ID 425899996); SFB 1315 (project ID 327654276); SFB 936 (project ID 178316478); SFB-TRR 295 (project ID 424778381); SPP Computational Connectomics RI 2073/6–1, RI 2073/10–2, RI 2073/9–1.
dc.format.mimetypeapplication/pdf
dc.identifier.citationSchirner M, Domide L, Perdikis D, Triebkorn P, Stefanovski L, Pai R, Prodan P, Valean B, Palmer J, Langford C, Blickensdörfer A, van der Vlag M, Diaz-Pier S, Peyser A, Klijn W, Pleiter D, Nahm A, Schmid O, Woodman M, Zehl L, Fousek J, Petkoski S, Kusch L, Hashemi M, Marinazzo D, Mangin JF, Flöel A, Akintoye S, Stahl BC, Cepic M, Johnson E, Deco G, McIntosh AR, Hilgetag CC, Morgan M, Schuller B, Upton A, McMurtrie C, Dickscheid T, Bjaalie JG, Amunts K, Mersmann J, Jirsa V, Ritter P. Brain simulation as a cloud service: the Virtual Brain on EBRAINS. Neuroimage. 2022;251:118973. DOI: 10.1016/j.neuroimage.2022.118973
dc.identifier.doihttp://dx.doi.org/10.1016/j.neuroimage.2022.118973
dc.identifier.issn1053-8119
dc.identifier.urihttp://hdl.handle.net/10230/55848
dc.language.isoeng
dc.publisherElsevier
dc.relation.ispartofNeuroImage. 2022;251:118973.
dc.relation.isreferencedbyhttps://ars.els-cdn.com/content/image/1-s2.0-S1053811922001021-mmc1.docx
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/785907
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/945539
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/800858
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/826421
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/H2020/683049
dc.rights© 2022 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/)
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subject.keywordBrain modelling
dc.subject.keywordCloud
dc.subject.keywordConnectome
dc.subject.keywordNeuroimaging
dc.subject.keywordNetwork model
dc.subject.keywordHigh performance computing
dc.subject.keywordReproducibility
dc.subject.keywordData protection
dc.titleBrain simulation as a cloud service: the Virtual Brain on EBRAINS
dc.typeinfo:eu-repo/semantics/article
dc.type.versioninfo:eu-repo/semantics/publishedVersion

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