Searching across hundreds of databases
Integrated Models is a virtual database currently indexing computational models from: CellML, ModelDB, Open Source Brain, SimTK.
(last updated: Nov 23, 2022)
Data or Model Models| Database | Model Name | Simulator Software | Model Type | Neurons | Neurotransmitters | Receptors | ||||
|---|---|---|---|---|---|---|---|---|---|---|
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ModelDB | Collection of simulated data from a thalamocortical network model (Glabska, Chintaluri, Wojcik 2017) | NEURON (web link to model), Python (web link to model) | Realistic Network | Thalamus geniculate nucleus/lateral principal GLU cell, Thalamus reticular nucleus GABA cell, Neocortex L5/6 pyramidal GLU cell, Neocortex L2/3 pyramidal GLU cell, Neocortex V1 L5B pyramidal pyramidal tract GLU cell | GabaA, AMPA, NMDA | I Na,p, I Na,t, I L high threshold, I T low threshold, I A, I K, I M, I h, I K,Ca, I Calcium, I A, slow | Activity Patterns, Bursting, Temporal Pattern Generation, Oscillations, Simplified Models, Epilepsy, Sleep, Methods, Spindles | "A major challenge in experimental data analysis is the validation of analytical methods in a fully controlled scenario where the justification of the interpretation can be made directly and not just by plausibility. ... One solution is to use simulations of realistic models to generate ground truth data. In neuroscience, creating such data requires plausible models of neural activity, access to high performance computers, expertise and time to prepare and run the simulations, and to process the output. To facilitate such validation tests of analytical methods we provide rich data sets including intracellular voltage traces, transmembrane currents, morphologies, and spike times. ... The data were generated using the largest publicly available multicompartmental model of thalamocortical network (Traub et al. 2005), with activity evoked by different thalamic stimuli." | Glabska, Helena [glabska@gmail.com [glabska at gmail.com], Chintaluri, Chaitanya [c.chintaluri at nencki.gov.pl] | |
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ModelDB | Dynamics of sleep oscillations coupled to brain temperature on multiple scales (Csernai et al 2019) | NEURON (web link to model), MATLAB (web link to model) | Realistic Network | Thalamus reticular nucleus GABA cell, Neocortex U1 L6 pyramidal corticalthalamic GLU cell | Temperature, Brain Rhythms, Sleep, Activity Patterns, Oscillations | "Every form of neural activity depends on temperature, yet its relationship to brain rhythms is poorly understood. In this work we examined how sleep spindles are influenced by changing brain temperatures and how brain temperature is influenced by sleep oscillations. We employed a novel thermoelectrode designed for measuring temperature while recording neural activity. We found that spindle frequency is positively correlated and duration negatively correlated with brain temperature. Local heating of the thalamus replicated the temperature dependence of spindle parameters in the heated area only, suggesting biophysical rather than global modulatory mechanisms, a finding also supported by a thalamic network model. Finally, we show that switches between oscillatory states also influence brain temperature on a shorter and smaller scale. Epochs of paradoxical sleep as well as the infra-slow oscillation were associated with brain temperature fluctuations below 0.2°C. Our results highlight that brain temperature is massively intertwined with sleep oscillations on various time scales." | Burka, Dávid, Emri, Zsuzsa, Káli, Szabolcs |
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