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

Schirner, Michael; Domide, Lia; Perdikis, Dionysios; Triebkorn, Paul; Stefanovski, Leon; Pai, Roopa; Prodan, Paula; Valean, Bogdan; Palmer, Jessica; Langford, Chloê; Blickensdörfer, André; van der Vlag, Michiel; Diaz-Pier, Sandra; Peyser, Alexander; Klijn, Wouter; Pleiter, Dirk; Nahm, Anne; Schmid, Oliver; Woodman, Marmaduke; Zehl, Lyuba; Fousek, Jan; Petkoski, Spase; Kusch, Lionel; Hashemi, Meysam; Marinazzo, Daniele; Mangin, Jean François; Flöel, Agnes; Akintoye, Simisola; Stahl, Bernd Carsten; Cepic, Michael; Johnson, Emily; Deco, Gustavo; McIntosh, Anthony R.; Hilgetag, Claus C.; Morgan, Marc; Schuller, Bernd; Upton, Alex; McMurtrie, Colin; Dickscheid, Timo; Bjaalie, Jan G.; Amunts, Katrin; Mersmann, Jochen; Jirsa, Viktor; Ritter, Petra

Abstract

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.

Citation

Schirner, 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., …Ritter, P. (2022). Brain simulation as a cloud service: The Virtual Brain on EBRAINS. NeuroImage, 251, Article 118973. https://doi.org/10.1016/j.neuroimage.2022.118973

• Journal Article Type: Article
• Acceptance Date: Feb 3, 2022
• Online Publication Date: Feb 4, 2022
• Publication Date: May 1, 2022
• Deposit Date: Dec 31, 2022
• Publicly Available Date: Jan 3, 2023
• Journal: NeuroImage
• Print ISSN: 1053-8119
• Electronic ISSN: 1095-9572
• Publisher: Elsevier
• Peer Reviewed: Peer Reviewed
• Volume: 251
• Article Number: 118973
• DOI: https://doi.org/10.1016/j.neuroimage.2022.118973
• Keywords: Cognitive Neuroscience; Neurology
• Public URL: https://nottingham-repository.worktribe.com/output/14601970
• Publisher URL: https://www.sciencedirect.com/science/article/pii/S1053811922001021?via%3Dihub