[HTML][HTML] The quest for multiscale brain modeling

E D'Angelo, V Jirsa - Trends in neurosciences, 2022 - cell.com
Addressing the multiscale organization of the brain, which is fundamental to the dynamic
repertoire of the organ, remains challenging. In principle, it should be possible to model …

[HTML][HTML] Data-driven multiscale computational models of cortical and subcortical regions

S Ramaswamy - Current opinion in neurobiology, 2024 - Elsevier
Data-driven computational models of neurons, synapses, microcircuits, and mesocircuits
have become essential tools in modern brain research. The goal of these multiscale models …

[HTML][HTML] Systematic integration of structural and functional data into multi-scale models of mouse primary visual cortex

YN Billeh, B Cai, SL Gratiy, K Dai, R Iyer, NW Gouwens… - Neuron, 2020 - cell.com
Structural rules underlying functional properties of cortical circuits are poorly understood. To
explore these rules systematically, we integrated information from extensive literature …

The Neurodata Without Borders ecosystem for neurophysiological data science

O Rübel, A Tritt, R Ly, BK Dichter, S Ghosh, L Niu… - Elife, 2022 - elifesciences.org
The neurophysiology of cells and tissues are monitored electrophysiologically and optically
in diverse experiments and species, ranging from flies to humans. Understanding the brain …

BrainPy, a flexible, integrative, efficient, and extensible framework for general-purpose brain dynamics programming

C Wang, T Zhang, X Chen, S He, S Li, S Wu - elife, 2023 - elifesciences.org
Elucidating the intricate neural mechanisms underlying brain functions requires integrative
brain dynamics modeling. To facilitate this process, it is crucial to develop a general-purpose …

Thalamic control of sensory processing and spindles in a biophysical somatosensory thalamoreticular circuit model of wakefulness and sleep

E Iavarone, J Simko, Y Shi, M Bertschy… - Cell Reports, 2023 - cell.com
Thalamoreticular circuitry plays a key role in arousal, attention, cognition, and sleep
spindles, and is linked to several brain disorders. A detailed computational model of mouse …

Connectivity concepts in neuronal network modeling

J Senk, B Kriener, M Djurfeldt, N Voges… - PLoS computational …, 2022 - journals.plos.org
Sustainable research on computational models of neuronal networks requires published
models to be understandable, reproducible, and extendable. Missing details or ambiguities …

Brain Modeling ToolKit: An open source software suite for multiscale modeling of brain circuits

K Dai, SL Gratiy, YN Billeh, R Xu, B Cai… - PLOS Computational …, 2020 - journals.plos.org
Experimental studies in neuroscience are producing data at a rapidly increasing rate,
providing exciting opportunities and formidable challenges to existing theoretical and …

Model simulations unveil the structure-function-dynamics relationship of the cerebellar cortical microcircuit

R De Schepper, A Geminiani, S Masoli… - Communications …, 2022 - nature.com
The cerebellar network is renowned for its regular architecture that has inspired foundational
computational theories. However, the relationship between circuit structure, function and …

Data-driven multiscale model of macaque auditory thalamocortical circuits reproduces in vivo dynamics

S Dura-Bernal, EY Griffith, A Barczak, MN O'Connell… - Cell reports, 2023 - cell.com
We developed a detailed model of macaque auditory thalamocortical circuits, including
primary auditory cortex (A1), medial geniculate body (MGB), and thalamic reticular nucleus …