Digital Brain Seminar
The aim of the Digital Brain Seminar series is to bring toghether people who are interested in creating Digital Brain, a digital reconstruction of the brain in structural, dynamic and functional aspects at difference scales in different species.
All seimnars are online or hybrid. Please REGISTER to get a zoom link for the series.
Most of the talks are archived on the YouTube channel.
Upcoming Seminars
2025/8/27 Wed 15:00-16:30 (JST)
Presentator: Stefano Panzeri (Institute of Neural Information Processing, University Medical Center Hamburg-Eppendorf)
Date: 2025/8/27 Wed 15:00-16:30 (JST), 8/27 Wed 8:00-9:30 (CET)
Place: Zoom (The registered page is above and same as usual link)
Title: Dissecting the contribution to perceptual decisions of encoding and readout of neural information
Abstract: Perceptual decisions require that neural populations encode information about the sensory environment and that other downstream populations read it out to inform behavioral outputs. Here we present our computational work to provide methods that individuate and tease apart the contribution of these two neural operations to the formation of perceptual decisions. We exemplify these methods with the study of several datasets from sensory and parietal cortices and we discuss their implications for understanding the emergent computations of neural population codes.
Past Seminars
Presentator: Anton Arkhipov (Allen Institute)
Date: 2025/6/13 Fri 10:30-12:00 (JST), 6/12 Thr 18:30-20:00 at Seattle time
Place: Zoom (The registered page is above and same as usual link)
Title: Integrating multimodal data for bio-realistic simulations of brain circuits
Recent Nature Neuroscience Paper: https://www.nature.com/articles/s41593-025-01904-7.pdf
Abstract: A central question in neuroscience is how the structure of the brain determines its activity and function. To explore this systematically, we develop large-scale bio-realistic simulations of brain circuits, which integrate a broad array of experimental data: Distribution and morpho-electric properties of different neuron types; Connection probabilities, synaptic weights, axonal delays, and dendritic targeting rules; And a representation of inputs into the simulated circuits from other parts of the brain. We will discuss this approach focusing on the 230,000-neuron model of mouse primary visual cortex (area V1). Simulations of neural activity in the model match experimental recordings in vivo on a number of metrics, such as firing rates, direction selectivity, and others. Applications include the following problems of broad interest: Understanding how architecture of brain circuit gives rise to the observed functional activity; Learning of behavioral and computational tasks in biological and artificial networks; Generation of the extracellular electric potential due to synaptic activity in the cortex. The model is shared freely with the community via brain-map.org, as are the datasets it is based on.
2025/3/27 Thu 17:30-19:00 JST (not 17:00-18:30 JST, sorry)
Alain Destexhe (NeuroPSI)
A computational approach to evaluate how molecular mechanisms impact large-scale brain activity (TBC)
This seminar will present the authors’ recent preprint
2025/2/25 Tue 17:00-18:30 JST
EBRAINS Seminar D: High Performance Computing and Co-Design
Registration link for this semnar
Jan Bjaalie and Ekaterina Zossimova
Co-Design & Science Support
Lena Oden
EBRAINS Base infrastructure and HPC services
2025/2/18 Tue 17:00-18:30 JST
EBRAINS Seminar C: Research Infrastructure and Education
Registration link for this seimnar
Wouter Klijn
EBRAINS-RI architecture, multiple scales of complexity
Franziska Vogel
EBRAINS Education and events for early career researcher
2025/2/17 10:30-12:00 JST
Kei Hirose (Kyushu University)
High-dimensional interpretable factor analysis via penalization**
2025/1/30 Thu 9:00-16:00 JST
Allen Neural Dynamics Workshop at OIST
Okinawa Institute of Science ant Technology (on-site only)
James Berg (Allen Institute for Neural Dynamics)
Saskia de Vries (Allen Institute for Neural Dynamics)
Movie 1
Movie 2
2025/1/28 Tue 17:00-18:30 JST
EBRAINS Seminar B: Simulation Capabilities
Susanne Kunkel (Jülich Research Centre)
The NEST ecosystem: A key enabler of efficient brain-scale spiking network simulation and sustainable neuroscience research
Thorsten Hater (Jülich Research Centre)
Multiscale Simulations of Full Brain Models using Arbor and TVB
Flashlight talks of developing integrated EBRAINS-RI workflows
- Sharon Yates (University of Oslo): QUINT workflow
- Giulia De Bonis (INFN): CobraWAP workflow
- Wouter Klijn (Jülich Research Centre): Virtual Brain Twin workflow
2025/1/16 13:00-14:30 JST
Daisuke Tagami (Kyushu University)
Introduction of Mathematics for Industry Platform (in Japanese)
Movie
2025/1/16 9:00-10:30 JST
Karel Svoboda (Allen Institute for Neural Dynamics)
Science at the Allen Institute for Neural Dynamics (AIND)
2025/1/7 15:00-16:30 JST
Se-Bum Paik (Korea Advanced Institute of Science and Technology)
Emergence of Cognitive Functions in Natural and Artificial Neural Networks**
2024/12/3 17:00-18:30 JST, 9:00 - 10:30 CET
EBRAINS Seminar A: Overview, Data Sharing and Brain Atlases
Katrin Amunts
EBRAINS – concepts, services and applications
Trygve Leergaard
Brain Atlases
Oliver Schmid
The EBRAINS Knowledge Graph - a scientific metadata management solution
Movie
2024/11/12 Tue 18:00-19:30 JST
Viktor Jirsa(Institut de Neurosciences des Systèmes)
Virtual Brain Twins in Medicine
Movie
2024/10/22 Tue 13:00-14:00 JST
Yukako Yamane (OIST)
Hands-on tutorial for OptiNiSt
Movie
2024/9/30 13:00-14:00 JST
Rui Gong (ExCELLS, NINS)
Tutorial on NIfTI Files, 3D Slicer and Image Registration using ANTs
Movie
2024/9/19-21
1st Digital Brain Workshop
Kyushu University Nihonbashi Satellite (on-site only)
2024/7/4 Thu 13:30-17:00 JST
Data sharing and standardization in human neuroscience
Main conference room, ATR and Online
13:30 - 14:30: Franco Pestilli (University of Texas)
Putting brain data and cloud technology to good use
14:45 - 15:45: Jean-Baptiste Poline (McGill University)
Changing the landscape of datasharing in brain research with standardized distributed infrastructures: a Neurobagel journey
16:00 - 17:00: Panel Discussion
2024/6/13 Thr 12:00-13:00 JST
Takuya Isomura (RIKEN Center for Brain Science)
Creating neuromorphic artificial intelligence using reverse engineering of generative models
2024/5/10 Fri 13:00-14:30 JST
Thomas Diego (Kyushu University)
Creating bridges between the digital and physical realms with 3D vision
2024/4/22 Mon 13:00-15:40
13:00-13:30 Ken Nakae (ExCELLS, NINS)
How to use the Brian/MINDS data portal
Movie
13:30-14:00 Hiromichi Tsukada (CMSAI, Chubu Univ.)
Connectome-based modeling using marmoset MRI and gene expression data
14:10-14:40 Hiroshi Ishii (Research Institute for Electronic Science, Hokkaido University)
Pattern formation in mathematical models including neuronal interaction effects
14:40-15:10 Keiichi Ueda (Faculty of Science, Academic Assembly, University of Toyama)
Decentralized distributed parameter tuning model for coupled oscillator systems
15:10-15:40 Yoshitaro Tanaka (School of Systems Information Science, Future University Hakodate)
Proposal of a mathematical model of a reservoir computing using the diffusive chemical reaction
2024/4/1 Mon 15:00-17:00 JST
Kyoto University and Online
15:00-16:30 Takeru Miyato (University of Tübingen)
Learning of hidden principled structures behind observations
16:30-17:00 Kenji Doya (Okinawa Institute of Science and Technology Graduate University)
What is the Digital Brain of Brain/MINDS 2.0
Slides
Movie
Early Web Site
Organizers
- Ken Nakae (ExCELLS)
- Daisuke Tagami (Kyushu University)
- Kenji Doya (OIST)
Sponsors
- Japan Agency for Medical Research and Development (AMED) (TBC)
- Mathematics for Industory Platform (MfIP)
- Biology of Behaviro Change, Grant-in-Aid for Transformative Research Areas, MEXT