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For: Melozzi F, Woodman MM, Jirsa VK, Bernard C. The Virtual Mouse Brain: A Computational Neuroinformatics Platform to Study Whole Mouse Brain Dynamics. eNeuro 2017;4:ENEURO. [PMID: 28664183 DOI: 10.1523/ENEURO.0111-17.2017] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Revised: 05/29/2017] [Accepted: 05/31/2017] [Indexed: 12/17/2022]  Open
Number Cited by Other Article(s)
1
Rabuffo G, Lokossou HA, Li Z, Ziaee-Mehr A, Hashemi M, Quilichini PP, Ghestem A, Arab O, Esclapez M, Verma P, Raj A, Gozzi A, Sorrentino P, Chuang KH, Perles-Barbacaru TA, Viola A, Jirsa VK, Bernard C. Mapping global brain reconfigurations following local targeted manipulations. Proc Natl Acad Sci U S A 2025;122:e2405706122. [PMID: 40249780 PMCID: PMC12037044 DOI: 10.1073/pnas.2405706122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2024] [Accepted: 02/13/2025] [Indexed: 04/20/2025]  Open
2
Rayfield AC, Wu T, Rifkin JA, Meaney DF. Individualized mouse brain network models produce asymmetric patterns of functional connectivity after simulated traumatic injury. Netw Neurosci 2025;9:326-351. [PMID: 40161980 PMCID: PMC11949614 DOI: 10.1162/netn_a_00431] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2024] [Accepted: 11/17/2024] [Indexed: 04/02/2025]  Open
3
Øvsthus M, van Swieten MMH, Puchades MA, Tocco C, Studer M, Bjaalie JG, Leergaard TB. Spatially integrated cortico-subcortical tracing data for analyses of rodent brain topographical organization. Sci Data 2024;11:1214. [PMID: 39532918 PMCID: PMC11557934 DOI: 10.1038/s41597-024-04060-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2024] [Accepted: 11/01/2024] [Indexed: 11/16/2024]  Open
4
Lupi E, Di Antonio G, Angiolelli M, Sacha M, Kayabas MA, Alboré N, Leone R, El Kanbi K, Destexhe A, Fousek J. A Whole-Brain Model of the Aging Brain During Slow Wave Sleep. eNeuro 2024;11:ENEURO.0180-24.2024. [PMID: 39406483 PMCID: PMC11540593 DOI: 10.1523/eneuro.0180-24.2024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2024] [Revised: 09/18/2024] [Accepted: 10/02/2024] [Indexed: 11/08/2024]  Open
5
Lokossou HA, Rabuffo G, Bernard M, Bernard C, Viola A, Perles-Barbacaru TA. Impact of the day/night cycle on functional connectome in ageing male and female mice. Neuroimage 2024;290:120576. [PMID: 38490583 DOI: 10.1016/j.neuroimage.2024.120576] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 03/07/2024] [Accepted: 03/12/2024] [Indexed: 03/17/2024]  Open
6
Kusch L, Diaz-Pier S, Klijn W, Sontheimer K, Bernard C, Morrison A, Jirsa V. Multiscale co-simulation design pattern for neuroscience applications. Front Neuroinform 2024;18:1156683. [PMID: 38410682 PMCID: PMC10895016 DOI: 10.3389/fninf.2024.1156683] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2023] [Accepted: 01/19/2024] [Indexed: 02/28/2024]  Open
7
Brynildsen JK, Rajan K, Henderson MX, Bassett DS. Network models to enhance the translational impact of cross-species studies. Nat Rev Neurosci 2023;24:575-588. [PMID: 37524935 PMCID: PMC10634203 DOI: 10.1038/s41583-023-00720-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/17/2023] [Indexed: 08/02/2023]
8
Schirner M, Deco G, Ritter P. Learning how network structure shapes decision-making for bio-inspired computing. Nat Commun 2023;14:2963. [PMID: 37221168 DOI: 10.1038/s41467-023-38626-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Accepted: 05/10/2023] [Indexed: 05/25/2023]  Open
9
Tesler F, Tort-Colet N, Depannemaecker D, Carlu M, Destexhe A. Mean-field based framework for forward modeling of LFP and MEG signals. Front Comput Neurosci 2022;16:968278. [PMID: 36313811 PMCID: PMC9606720 DOI: 10.3389/fncom.2022.968278] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 08/17/2022] [Indexed: 11/20/2022]  Open
10
D'Angelo E, Jirsa V. The quest for multiscale brain modeling. Trends Neurosci 2022;45:777-790. [PMID: 35906100 DOI: 10.1016/j.tins.2022.06.007] [Citation(s) in RCA: 53] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2022] [Revised: 05/20/2022] [Accepted: 06/21/2022] [Indexed: 01/07/2023]
11
Petkoski S, Jirsa VK. Normalizing the brain connectome for communication through synchronization. Netw Neurosci 2022;6:722-744. [PMID: 36607179 PMCID: PMC9810372 DOI: 10.1162/netn_a_00231] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Accepted: 01/10/2022] [Indexed: 01/10/2023]  Open
12
Siu PH, Müller E, Zerbi V, Aquino K, Fulcher BD. Extracting Dynamical Understanding From Neural-Mass Models of Mouse Cortex. Front Comput Neurosci 2022;16:847336. [PMID: 35547660 PMCID: PMC9081874 DOI: 10.3389/fncom.2022.847336] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2022] [Accepted: 03/22/2022] [Indexed: 11/13/2022]  Open
13
Brain simulation as a cloud service: The Virtual Brain on EBRAINS. Neuroimage 2022;251:118973. [DOI: 10.1016/j.neuroimage.2022.118973] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Revised: 02/02/2022] [Accepted: 02/03/2022] [Indexed: 12/18/2022]  Open
14
Griffiths JD, Bastiaens SP, Kaboodvand N. Whole-Brain Modelling: Past, Present, and Future. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2022;1359:313-355. [DOI: 10.1007/978-3-030-89439-9_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
15
Okuno T, Woodward A. Vector Auto-Regressive Deep Neural Network: A Data-Driven Deep Learning-Based Directed Functional Connectivity Estimation Toolbox. Front Neurosci 2021;15:764796. [PMID: 34899167 PMCID: PMC8651499 DOI: 10.3389/fnins.2021.764796] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Accepted: 10/19/2021] [Indexed: 11/13/2022]  Open
16
Rabuffo G, Fousek J, Bernard C, Jirsa V. Neuronal Cascades Shape Whole-Brain Functional Dynamics at Rest. eNeuro 2021;8:ENEURO.0283-21.2021. [PMID: 34583933 PMCID: PMC8555887 DOI: 10.1523/eneuro.0283-21.2021] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 09/11/2021] [Accepted: 09/15/2021] [Indexed: 01/20/2023]  Open
17
Depannemaecker D, Destexhe A, Jirsa V, Bernard C. Modeling seizures: From single neurons to networks. Seizure 2021;90:4-8. [PMID: 34219016 DOI: 10.1016/j.seizure.2021.06.015] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Revised: 06/11/2021] [Accepted: 06/11/2021] [Indexed: 11/26/2022]  Open
18
Timonidis N, Tiesinga PHE. Progress towards a cellularly resolved mouse mesoconnectome is empowered by data fusion and new neuroanatomy techniques. Neurosci Biobehav Rev 2021;128:569-591. [PMID: 34119523 DOI: 10.1016/j.neubiorev.2021.06.016] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 04/02/2021] [Accepted: 06/05/2021] [Indexed: 10/21/2022]
19
Kringelbach ML, Deco G. Brain States and Transitions: Insights from Computational Neuroscience. Cell Rep 2021;32:108128. [PMID: 32905760 DOI: 10.1016/j.celrep.2020.108128] [Citation(s) in RCA: 123] [Impact Index Per Article: 30.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Revised: 07/22/2020] [Accepted: 08/19/2020] [Indexed: 11/25/2022]  Open
20
Stefanovski L, Meier JM, Pai RK, Triebkorn P, Lett T, Martin L, Bülau K, Hofmann-Apitius M, Solodkin A, McIntosh AR, Ritter P. Bridging Scales in Alzheimer's Disease: Biological Framework for Brain Simulation With The Virtual Brain. Front Neuroinform 2021;15:630172. [PMID: 33867964 PMCID: PMC8047422 DOI: 10.3389/fninf.2021.630172] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 03/08/2021] [Indexed: 12/18/2022]  Open
21
Spiegler A, Abadchi JK, Mohajerani M, Jirsa VK. In silico exploration of mouse brain dynamics by focal stimulation reflects the organization of functional networks and sensory processing. Netw Neurosci 2021;4:807-851. [PMID: 33615092 PMCID: PMC7888484 DOI: 10.1162/netn_a_00152] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Accepted: 06/08/2020] [Indexed: 12/12/2022]  Open
22
Lazar AA, Liu T, Turkcan MK, Zhou Y. Accelerating with FlyBrainLab the discovery of the functional logic of the Drosophila brain in the connectomic and synaptomic era. eLife 2021;10:e62362. [PMID: 33616035 PMCID: PMC8016480 DOI: 10.7554/elife.62362] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Accepted: 02/21/2021] [Indexed: 11/25/2022]  Open
23
Anderson KR, Harris JA, Ng L, Prins P, Memar S, Ljungquist B, Fürth D, Williams RW, Ascoli GA, Dumitriu D. Highlights from the Era of Open Source Web-Based Tools. J Neurosci 2021;41:927-936. [PMID: 33472826 PMCID: PMC7880282 DOI: 10.1523/jneurosci.1657-20.2020] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2020] [Revised: 11/22/2020] [Accepted: 11/29/2020] [Indexed: 12/20/2022]  Open
24
Sokolov AA, Zeidman P, Razi A, Erb M, Ryvlin P, Pavlova MA, Friston KJ. Asymmetric high-order anatomical brain connectivity sculpts effective connectivity. Netw Neurosci 2020;4:871-890. [PMID: 33615094 PMCID: PMC7888488 DOI: 10.1162/netn_a_00150] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2020] [Accepted: 05/18/2020] [Indexed: 12/12/2022]  Open
25
Allegra Mascaro AL, Falotico E, Petkoski S, Pasquini M, Vannucci L, Tort-Colet N, Conti E, Resta F, Spalletti C, Ramalingasetty ST, von Arnim A, Formento E, Angelidis E, Blixhavn CH, Leergaard TB, Caleo M, Destexhe A, Ijspeert A, Micera S, Laschi C, Jirsa V, Gewaltig MO, Pavone FS. Experimental and Computational Study on Motor Control and Recovery After Stroke: Toward a Constructive Loop Between Experimental and Virtual Embodied Neuroscience. Front Syst Neurosci 2020;14:31. [PMID: 32733210 PMCID: PMC7359878 DOI: 10.3389/fnsys.2020.00031] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Accepted: 05/08/2020] [Indexed: 01/22/2023]  Open
26
Individual structural features constrain the mouse functional connectome. Proc Natl Acad Sci U S A 2019;116:26961-26969. [PMID: 31826956 PMCID: PMC6936369 DOI: 10.1073/pnas.1906694116] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]  Open
27
Buccelli S, Bornat Y, Colombi I, Ambroise M, Martines L, Pasquale V, Bisio M, Tessadori J, Nowak P, Grassia F, Averna A, Tedesco M, Bonifazi P, Difato F, Massobrio P, Levi T, Chiappalone M. A Neuromorphic Prosthesis to Restore Communication in Neuronal Networks. iScience 2019;19:402-414. [PMID: 31421595 PMCID: PMC6706626 DOI: 10.1016/j.isci.2019.07.046] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Revised: 07/18/2019] [Accepted: 07/29/2019] [Indexed: 12/20/2022]  Open
28
Background EEG Connectivity Captures the Time-Course of Epileptogenesis in a Mouse Model of Epilepsy. eNeuro 2019;6:ENEURO.0059-19.2019. [PMID: 31346002 PMCID: PMC6709215 DOI: 10.1523/eneuro.0059-19.2019] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Revised: 05/12/2019] [Accepted: 05/30/2019] [Indexed: 11/21/2022]  Open
29
Shen K, Bezgin G, Schirner M, Ritter P, Everling S, McIntosh AR. A macaque connectome for large-scale network simulations in TheVirtualBrain. Sci Data 2019;6:123. [PMID: 31316116 PMCID: PMC6637142 DOI: 10.1038/s41597-019-0129-z] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2018] [Accepted: 06/18/2019] [Indexed: 12/15/2022]  Open
30
Synchronization dependent on spatial structures of a mesoscopic whole-brain network. PLoS Comput Biol 2019;15:e1006978. [PMID: 31013267 PMCID: PMC6499430 DOI: 10.1371/journal.pcbi.1006978] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Revised: 05/03/2019] [Accepted: 03/26/2019] [Indexed: 11/20/2022]  Open
31
Bassett DS, Zurn P, Gold JI. On the nature and use of models in network neuroscience. Nat Rev Neurosci 2018;19:566-578. [PMID: 30002509 PMCID: PMC6466618 DOI: 10.1038/s41583-018-0038-8] [Citation(s) in RCA: 197] [Impact Index Per Article: 28.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
32
Chizhov AV, Zefirov AV, Amakhin DV, Smirnova EY, Zaitsev AV. Minimal model of interictal and ictal discharges "Epileptor-2". PLoS Comput Biol 2018;14:e1006186. [PMID: 29851959 PMCID: PMC6005638 DOI: 10.1371/journal.pcbi.1006186] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2017] [Revised: 06/18/2018] [Accepted: 05/09/2018] [Indexed: 12/01/2022]  Open
33
Bansal K, Nakuci J, Muldoon SF. Personalized brain network models for assessing structure-function relationships. Curr Opin Neurobiol 2018;52:42-47. [PMID: 29704749 DOI: 10.1016/j.conb.2018.04.014] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2018] [Accepted: 04/09/2018] [Indexed: 12/31/2022]
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