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Lookup NU author(s): Dr Srikanth RamaswamyORCiD
This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).
Copyright: © 2024 Romani et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.The CA1 region of the hippocampus is one of the most studied regions of the rodent brain, thought to play an important role in cognitive functions such as memory and spatial navigation. Despite a wealth of experimental data on its structure and function, it has been challenging to integrate information obtained from diverse experimental approaches. To address this challenge, we present a community-based, full-scale in silico model of the rat CA1 that integrates a broad range of experimental data, from synapse to network, including the reconstruction of its principal afferents, the Schaffer collaterals, and a model of the effects that acetylcholine has on the system. We tested and validated each model component and the final network model, and made input data, assumptions, and strategies explicit and transparent. The unique flexibility of the model allows scientists to potentially address a range of scientific questions. In this article, we describe the methods used to set up simulations to reproduce in vitro and in vivo experiments. Among several applications in the article, we focus on theta rhythm, a prominent hippocampal oscillation associated with various behavioral correlates and use our computer model to reproduce experimental findings. Finally, we make data, code, and model available through the hippocampushub.eu portal, which also provides an extensive set of analyses of the model and a user-friendly interface to facilitate adoption and usage. This community-based model represents a valuable tool for integrating diverse experimental data and provides a foundation for further research into the complex workings of the hippocampal CA1 region.
Author(s): Romani A, Antonietti A, Bella D, Budd J, Giacalone E, Kurban K, Saray S, Abdellah M, Arnaudon A, Boci E, Colangelo C, Courcol J-D, Delemontex T, Ecker A, Falck J, Favreau C, Gevaert M, Hernando JB, Herttuainen J, Ivaska G, Kanari L, Kaufmann A-K, King JG, Kumbhar P, Lange S, Lu H, Lupascu CA, Migliore R, Petitjean F, Planas J, Rai P, Ramaswamy S, Reimann MW, Riquelme JL, Roman Guerrero N, Shi Y, Sood V, Sy MF, Van Geit W, Vanherpe L, Freund TF, Mercer A, Muller E, Schurmann F, Thomson AM, Migliore M, Kali S, Markram H
Publication type: Article
Publication status: Published
Journal: PLoS Biology
Year: 2024
Volume: 22
Issue: 11
Online publication date: 05/11/2024
Acceptance date: 24/09/2024
Date deposited: 18/11/2024
ISSN (electronic): 1545-7885
Publisher: Public Library of Sciences
URL: https://doi.org/10.1371/journal.pbio.3002861
DOI: 10.1371/journal.pbio.3002861
Data Access Statement: All relevant data, tools, software, and models are available on the Hippocampus Hub (https://www.hippocampushub. eu). The full network model, along with the code and data needed to reproduce all the figures, are also accessible on the Harvard Dataverse. Model: https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/TN3DUI Figures: https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/UGOQWE
PubMed id: 39499732
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