Wiki source code of Interactive Exploration of Brain States and Spatio-Temporal Activity Patterns in Data-Constrained Simulations

Version 22.1 by cristianocapone on 2021/09/23 13:23

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18.1	6	Open the Lab link on the left to explore brain states and spatio-temporal cortical activity patterns on your own
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17.1	14	How the same network can generate different brain states with their specific propagation patterns and rhythms?
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22.1	16	In this Jupyter Lab environment, the user can interactively change the neuromodulated fatigue parameters and observe in real-time the emergence of different categories of slow- wave wave-propagation patterns and the transition to an asynchronous regime on a columnar mean-field model equipped with lateral connections inferred from experimentally acquired cortical activity.
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21.1	18	[[image:example1.png]]
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9.2	22	The model displays the dorsal view of a mouse cortical hemisphere sampled by pixels of 100-micron size over a 25 mm2 field of view.
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	24	The connectivity of the model was inferred from cortical activity acquired using GECI imaging technique. Even if the connectivity of the model was inferred from a single brain-state, the neuromodulated model supports the emergence of a rich dynamic repertoire of spatio-temporal propagation patterns, from those corresponding to deepests levels of anesthesia (spirals) to classical postero-anterior and rostro-caudal waves up to the transition to asynchronous activity, with the dissolution of the slow-wave features (1).
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21.1	26	The experimental data set from which the model has been inferred has been provided by LENS and it is available in the EBRAINS KG (2).
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21.1	28	The predecessor of this model can be found at (3).
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21.1	30	The latest version of the code presented in the drive of this collab can be found at (4).
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11.1	32	(1) Capone, C. et al. (2021) “Simulations Approaching Data: Cortical Slow Waves in Inferred Models of the Whole Hemisphere of Mouse” arXiv:2104.07445 [[https:~~/~~/arxiv.org/abs/2104.07445>>https://arxiv.org/abs/2104.07445]]
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11.1	34	(2) Resta, F., Allegra Mascaro, A. L., & Pavone, F. (2020). //Study of Slow Waves (SWs) propagation through wide-field calcium imaging of the right cortical hemisphere of GCaMP6f mice// [Data set]. EBRAINS. [[DOI: 10.25493/3E6Y-E8G>>url:https://doi.org/10.25493%2F3E6Y-E8G]]
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15.1	36	(3) Mean Field Simulation of whole mouse hemisphere with parameters inferred from optical recordings [[https:~~/~~/search.kg.ebrains.eu/instances/e572362f-9461-4f9d-81e2-b69cd44185f4>>https://search.kg.ebrains.eu/instances/e572362f-9461-4f9d-81e2-b69cd44185f4]]
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	39	(4) [[https:~~/~~/github.com/APE-group/InteractiveExplorationBrainStates>>https://github.com/APE-group/InteractiveExplorationBrainStates]]
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	44	{{box title="Contents"}}
	45	{{toc/}}
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