The VirtualBrainCloud (TVB-Cloud) progress
The objective of The VirtualBrainCloud (TVB-Cloud) project is to develop and validate the VirtualBrainCloud platform, a dedicated cloud-based environment that leverages the potential of big data and high-performance computing (HPC) for personalized prevention and treatment of neurodegenerative diseases (NDD). TVB-Cloud is embedded in The European Cloud Initiative. It combines already existing technologies and contributes to the development of new Information and communication technology (ICT) services while ensuring the appropriate data safety and protection.
The progress of the TVB-Cloud project described below on a yearly basis.
project results and achievements
events, dissemination and communication
Established contact with relevant external stakeholders
TheVirtualBrain @ Long Night of the Sciences Berlin 2019
CNS*2019 Workshop in Barcelona
TVB Node#9 Workshop in Warsaw
The Virtual Brain Booth and Dedicated Poster Session at SFN
TheVirtualBrain @ BrainModes 2019
scientific publications
Switching Operation Modes in the Neocortex via Cholinergic Neuromodulation
Modulating grid cell scale and intrinsic frequencies via slow high-threshold conductances: A simplified model
Frequency cluster formation and slow oscillations in neural populations with plasticity
The importance of standards for sharing of computational models and dataArbor – a morphologically-detailed neural network simulation library for contemporary high-performance computing architectures.
A macaque connectome for large-scale network simulations in TheVirtualBrain
Linking molecular pathways and large-scale computational modeling to assess candidate disease mechanisms and pharmacodynamics in Alzheimer’s disease
2020
public technical reports
Gateway to PRACE documentation and guidelines
Semantic framework for neurodegeneration research documented
Integrated, open source terminology versioning and management tool CTS2 compliant application
Initial version of full-scope containerized pipeline developed
Full-cohort MEG time series in BIDS share and analysis pipeline ready (soon)
Evaluation of cross-modal atlas-based compression for machine-learning
Data catalogue with harmonized annotations at project
Text mining workflow to use ontologies and terminologies in OLS for information extraction of “cause-and-effect” statements. (soon)
Digital atlas that maps signalling pathways on corresponding brain regions for different neurodegenerative states in humans (soon)
Cloud implementation strategy applying EOSC cloud principles (soon)
events, dissemination and communication
Stakeholder conference on GDPR-impact
Stream: Bridging the gap between new technologies, health research and the protection of personal data
Stakeholder conference: Specific issues of neurodegenerative diseases – The patients’ perspective: AI approaches for dementia research, diagnosis & treatment & Dementia research and AI: ethical, legal and social implications
European Parliament Workshop: Digital data for dementia research and innovation (recordings)
TVB-Cloud booth @ Realising the European Open Science Cloud Expo
Advances in Alzheimer's and Parkinson's Therapies Fokus Meeting
The Virtual Brain Node#10 Workshop: Personalized Multi-Scale Brain Simulation
Publishable Project Summary
TVB-Cloud Project Video
Data Sharing in Health Research Webinar
scientific publications
Mapping the European Legal Framework on Security Requirements for Cloud Computing Infrastructures in the Healthcare Sector
Brain Network Simulations Indicate Effects of Neuregulin-1 Genotype on Excitation-Inhibition Balance in Cortical Dynamics
From genes to network models of Alzheimer's disease: Biological framework for multi-scale brain simulation with The Virtual Brain
Evaluating the Alzheimer's Disease Data Landscape (accepted for publication)
The Bayesian Virtual Epileptic Patient: A probabilistic framework designed to infer the spatial map of epileptogenicity in a personalized large-scale brain model of epilepsy spread
Movement Disorders After Hypoxic Brain Injury Following Cardiac Arrest in Adults
Proposal of an Architecture for Terminology Management in a Research Project
Complexity Matching: Brain Signals Mirror Environment Information Patterns during Music Listening and Reward.
Modeling brain dynamics after tumor resection using The Virtual Brain
Are unimanual movements bilateral?
2021
public technical reports
Most appropriate RS-processing pipelines for TVB modelling finished (soon)
Group level SEEG brain dynamics measures and analysis pipeline for SEEG (soon)
Full-cohort individual MEG brain dynamics measures at the disposal (soon)
Framework for multi-modal integrated annotations established and in use (soon)
Evaluation and optimization of pipeline for practical use concluded (soon)
Publication of a study on deconfounding for inference (soon)
Semantically enhanced multi-viewer that embeds a newly developed TVB 3D viewer (soon)
A functionally integrated version of VBC is evaluated for therapeutical targets (soon)
VBC operation report and published services on EOSC/EGI Marketplace (soon)
events, dissemination and communication
Brain Connectivity Workshop
“Personalized Multi-scale Brain Simulation” Virtual Course
15th International Conference on Alzheimer's & Parkinson's Disease AD/PD 2021
Alzheimer Europe co-hosts European Parliament Workshop on “Digital data for dementia research and innovation”
The virtual Brain lecture and workshop at McGill Summer School
scientific publications
project work plan
2022
public technical reports
Optimization and evaluation of pipeline for practical use concluded
Seamless integration of electrophysiological data workflows with TVB modelling
Multi-resolution TVB models with evidence for optimal granularity
CTS2 standard compliant interface will be released to project partners
Publication of a causality study based on an instrumental variables approach
Webinar with demonstration of personalized simulation (“case studies”) using the integrated model in TVB
Workflows established that link progression models and TVB
Final VBC platform is fully integrated and validated and full documentation of its functionalities
Validated and benchmarked data fitting workflow will be provided as a software for brain model personalization
TVB human models will be made available. We will identify the biophysical terms in the TVB models that are altered in NDD as compared to healthy individuals, and in relation to cognitive status
Validated Use Case of a brain simulation platform for NDD, usable by scientists and clinicians, for subsequent refined clinical studies towards development of therapeutic targets associated with basic physiological mechanisms
events, dissemination and communication
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scientific publications