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Mathematical framework for large-scale brain network modeling in The Virtual Brain

Paula Sanz-Leon, Stuart A. Knock, Andreas Spiegler, Viktor K. Jirsa
2015 NeuroImage  
Keywords: Brain network models Neural mass Neural field Whole brain dynamics Forward solutions Cortical surface Brain simulator EEG MEG fMRI BOLD In this article, we describe the mathematical framework  ...  The implementation allows for a systematic exploration and manipulation of every underlying component of a large-scale brain network model (BNM), such as the neural mass model governing the local dynamics  ...  Acknowledgments The research reported herein was supported by the Brain Network Recovery Group through the James S. McDonnell Foundation and the FP7-ICT BrainScales -2009-6.  ... 
doi:10.1016/j.neuroimage.2015.01.002 pmid:25592995 fatcat:v5etutxbyvaxvg7yktvig6fa5u

Personalized brain network models for assessing structure–function relationships

Kanika Bansal, Johan Nakuci, Sarah Feldt Muldoon
2018 Current Opinion in Neurobiology  
Here, we discuss recent work using personalized brain network models to study structure-function relationships in human brains.  ...  Finally, we present examples of how personalized brain network models can be used to gain insight into the effects of local stimulation and improve surgical outcomes in epilepsy.  ...  The content is solely the responsibility of the authors and does not necessarily represent the official views of any of the funding agencies.  ... 
doi:10.1016/j.conb.2018.04.014 pmid:29704749 fatcat:liix2j37yzakxb74huqdagvxqu

A new neuroinformatics approach to personalized medicine in neurology

Maria I. Falcon, Viktor Jirsa, Ana Solodkin
2016 Current Opinion in Neurology  
In this context, we introduce a new and unique multiscale approach, The Virtual Brain (TVB), that effectively models individualized brain activity, linking large-scale (macroscopic) brain dynamics with  ...  Purpose of review-An exciting advance in the field of neuroimaging is the acquisition and processing of very large data sets (so called 'big data'), permitting large-scale inferences that foster a greater  ...  Acknowledgments The authors thank Dr A.R. McIntosh, Dr P. Ritter, and Dr S.L. Small for helpful discussions. Financial support and sponsorship  ... 
doi:10.1097/wco.0000000000000344 pmid:27224088 pmcid:PMC5536184 fatcat:jgd7khk7ajbwrhzh7bwib3r4nq

A roadmap to computational social neuroscience

Emmanuelle Tognoli, Guillaume Dumas, J. A. Scott Kelso
2017 Cognitive Neurodynamics  
model of a social partner, the Human Dynamic Clamp which, by virtue of experimentally controlled interactions with real people, allows for emergent behaviors to be studied; and (2) a multiscale neurocomputational  ...  These complementary frameworks and the cross product of their analysis aim at understanding the fundamental principles governing social behavior.  ...  This work was supported by NIMH award MH080838 and by the Davimos Family Endowment for Excellence in Science.  ... 
doi:10.1007/s11571-017-9462-0 pmid:29435093 fatcat:6ukzap622bdytblyh5li64y7xu

Towards the virtual brain: network modeling of the intact and the damaged brain

V K Jirsa, O Sporns, M Breakspear, G Deco, A R McIntosh
2010 Archives Italiennes de Biologie  
Neurocomputational models of large-scale brain dynamics utilizing realistic connectivity matrices have advanced our understanding of the operational network principles in the brain.  ...  These collective insights will be at the core of a new computational environment, the Virtual Brain, which will allow flexible incorporation of empirical data constraining the brain models to integrate  ...  Acknowledgements We are grateful for funding received by the James S McDonnell Foundation, Grant Brain NRG [JSMF22002082].  ... 
pmid:21175008 fatcat:322g72b3qrceznsyr6g7bi5qq4

Quantitative Systems Pharmacology in Neuroscience: Novel Methodologies and Technologies

Peter Bloomingdale, Tatiana Karelina, Murat Cirit, Sarah F. Muldoon, Justin Baker, William J. McCarty, Hugo Geerts, Sreeraj Macha
2021 CPT: Pharmacometrics & Systems Pharmacology  
To maximize the knowledge gained from these novel data types, pharmacometrics modelers may need to expand their toolbox to include additional mathematical and statistical frameworks.  ...  of the brain.  ...  Neural circuits in a region of the brain develop in 3D space and interact through a complex network, which is a major limitation for the translatability between 2D in vitro experimental models and in vivo  ... 
doi:10.1002/psp4.12607 pmid:33719204 pmcid:PMC8129713 fatcat:whbfagi6k5bs7cnv2w76fd7wf4

Individual structural connectivity defines propagation networks in partial epilepsy [article]

Timothée Proix, Fabrice Bartolomei, Maxime Guye, Viktor K. Jirsa
2016 arXiv   pre-print
We create personalized large-scale brain networks for 15 patients and simulate the individual seizure propagation patterns.  ...  When structural information from non-invasive brain imaging is merged with mathematical modeling, then generative brain network models constitute in-silico platforms for the exploration of causal mechanisms  ...  Acknowledgement This work was supported by the Brain Network Recovery Group through the James S.  ... 
arXiv:1604.08508v1 fatcat:dzrpt6sk3jc25h6pvjhi4a33je

Introduction: Multiscale Analysis - Modeling, Data, Networks, and Nonlinear Dynamics [chapter]

Misha Meyer Z. Pesenson
2013 Multiscale Analysis and Nonlinear Dynamics  
I spelled out a moral for the general structure of scientific knowledge: that scale changes in a wide variety of instances can lead to qualitative change in the nature of phenomenon." P.  ...  Multiscale Analysis -Modeling, Data, Networks, and Nonlinear Dynamics Misha (Meyer) Z. Pesenson " . . . the twin difficulties of scale and complexity." P. Anderson [1] " . . .  ...  Danielle Bassett and Felix Siebenh€ uhner, in their chapter called "Multiscale Network Organization in the Human Brain," examine the multiscale organization evident in brain network models.  ... 
doi:10.1002/9783527671632.ch01 fatcat:yqwacdtquzfl5c55rsjgb3tbcq

FPGA Based Platform for Spiking Neural Network

Devanshi Raval
2017 International Journal for Research in Applied Science and Engineering Technology  
They are hoping to match the human brain in vision, hearing, pattern recognition and learning tasks.  ...  Our goal is to create Field Programmable Gate Array (FPGA) platforms of large scale spiking neural networks to allow the testing of certain hypotheses related to neuroscience theories.  ...  Paper-1: An FPGA design framework for large-scale spiking neural networks.  ... 
doi:10.22214/ijraset.2017.3076 fatcat:ffknumobzrbilplytwhm7lgeha

Linking brain structure, activity and cognitive function through computation

Katrin Amunts, Javier DeFelipe, Cyriel Pennartz, Alain Destexhe, Michele Migliore, Philippe Ryvlin, Steve Furber, Alois Knoll, Lise Bitsch, Jan G. Bjaalie, Yannis Ioannidis, Thomas Lippert (+3 others)
2022 eNeuro  
In 2013 the European Union launched the Human Brain Project (HBP) with the mission to integrate spatial and temporal scales of brain sciences within a common framework, ultimately leading to the digital  ...  Computational approaches enable large and complex datasets to be addressed efficiently, supported by artificial neural networks, modeling and simulation.  ...  processing, and result in improved concepts derived from large-scale and cellular networks in the brain.  ... 
doi:10.1523/eneuro.0316-21.2022 pmid:35217544 pmcid:PMC8925650 fatcat:k7obyuqb5vcenossdwrlcbg4eu

What Can Computational Models Contribute to Neuroimaging Data Analytics?

Oleksandr V. Popovych, Thanos Manos, Felix Hoffstaedter, Simon B. Eickhoff
2019 Frontiers in Systems Neuroscience  
We then focus on a few recent contributions of mathematical modeling to our understanding of the brain dynamics and model-based approaches in medicine.  ...  Over the past years, nonlinear dynamical models have significantly contributed to the general understanding of brain activity as well as brain disorders.  ...  This work was supported by the Deutsche Forschungsgemeinschaft (DFG, EI 816/11-1), the National Institute of Mental Health (R01-MH074457), the Helmholtz Portfolio Theme Supercomputing and Modeling for  ... 
doi:10.3389/fnsys.2018.00068 pmid:30687028 pmcid:PMC6338060 fatcat:avpgrgs5ofdjfoln4b4bgrih7i

The Scientific Case for Brain Simulations

Gaute T. Einevoll, Alain Destexhe, Markus Diesmann, Sonja Grün, Viktor Jirsa, Marc de Kamps, Michele Migliore, Torbjørn V. Ness, Hans E. Plesser, Felix Schürmann
2019 Neuron  
A key element of the European Union's Human Brain Project (HBP) and other large-scale brain research projects is the simulation of large-scale model networks of neurons.  ...  Here, we argue why such simulations will likely be indispensable for bridging the scales between the neuron and system levels in the brain, and why a set of brain simulators based on neuron models at different  ...  A key element of the European Union's Human Brain Project (HBP) and other large-scale brain research projects is the simulation of large-scale model networks of neurons.  ... 
doi:10.1016/j.neuron.2019.03.027 pmid:31121126 fatcat:gzq5cfm47za27kdgiecuwfrcvm

The Virtual Mouse Brain: A Computational Neuroinformatics Platform to Study Whole Mouse Brain Dynamics

Francesca Melozzi, Marmaduke M. Woodman, Viktor K. Jirsa, Christophe Bernard
2017 eNeuro  
Connectome-based modeling of large-scale brain network dynamics enables causal in silico interrogation of the brain's structure-function relationship, necessitating the close integration of diverse neuroinformatics  ...  Here we extend the open-source simulation software The Virtual Brain to whole mouse brain network modeling based on individual diffusion Magnetic Resonance Imaging (dMRI)-based or tracer-based detailed  ...  ., and the Allen Institute, for sharing their data with the community.  ... 
doi:10.1523/eneuro.0111-17.2017 pmid:28664183 pmcid:PMC5489253 fatcat:wydbz7dxwfatbpdfynmmte4hsi

Large-scale modeling – a tool for conquering the complexity of the brain

Mikael Djurfeldt
2008 Frontiers in Neuroinformatics  
In this perspective we discuss methods to handle complexity, approaches to model building, and point to detailed large-scale models as a new contribution to the toolbox of the computational neuroscientist  ...  We elucidate some aspects which distinguishes large-scale models and some of the technological challenges which they entail.  ...  For large-scale models, the suggestion was made to implement a framework for connecting software components enabling on-line communication for example between two parallel simulators or between a parallel  ... 
doi:10.3389/neuro.11.001.2008 pmid:18974793 pmcid:PMC2525974 fatcat:j375e4vnjzebriv5gpxsgbipge

The Virtual Mouse Brain: A Computational Neuroinformatics Platform To Study Whole Mouse Brain Dynamics [article]

Francesca Melozzi, Marmaduke Woodman, Viktor Jirsa, Christophe Bernard
2017 bioRxiv   pre-print
Connectome-based modeling of large-scale brain network dynamics enables causal in silico interrogation of the brain's structure-function relationship, necessitating the close integration of diverse neuroinformatics  ...  Here we extend the open-source simulation software The Virtual Brain to whole mouse brain network modeling based on individual diffusion Magnetic Resonance Imaging (dMRI)-based or tracer-based detailed  ...  ., and the Allen Institute, for sharing their data with the community.  ... 
doi:10.1101/123406 fatcat:gj4xso4w6bgqtkntgztqutmsae
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