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Benozzo D, Baron G, Coletta L, Chiuso A, Gozzi A, Bertoldo A. Macroscale coupling between structural and effective connectivity in the mouse brain. Sci Rep 2024; 14:3142. [PMID: 38326324 PMCID: PMC10850485 DOI: 10.1038/s41598-024-51613-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Accepted: 01/07/2024] [Indexed: 02/09/2024] Open
Abstract
Exploring how the emergent functional connectivity (FC) relates to the underlying anatomy (structural connectivity, SC) is one of the major goals of modern neuroscience. At the macroscale level, no one-to-one correspondence between structural and functional links seems to exist. And we posit that to better understand their coupling, two key aspects should be considered: the directionality of the structural connectome and limitations in explaining networks functions through an undirected measure such as FC. Here, we employed an accurate directed SC of the mouse brain acquired through viral tracers and compared it with single-subject effective connectivity (EC) matrices derived from a dynamic causal model (DCM) applied to whole-brain resting-state fMRI data. We analyzed how SC deviates from EC and quantified their respective couplings by conditioning on the strongest SC links and EC links. We found that when conditioning on the strongest EC links, the obtained coupling follows the unimodal-transmodal functional hierarchy. Whereas the reverse is not true, as there are strong SC links within high-order cortical areas with no corresponding strong EC links. This mismatch is even more clear across networks; only within sensory motor networks did we observe connections that align in terms of both effective and structural strength.
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Affiliation(s)
- Danilo Benozzo
- Department of Information Engineering, University of Padova, Padua, Italy.
| | - Giorgia Baron
- Department of Information Engineering, University of Padova, Padua, Italy
| | - Ludovico Coletta
- Functional Neuroimaging Laboratory, Center for Neuroscience and Cognitive Systems @ UniTn, Istituto Italiano di Tecnologia, Rovereto, Italy
| | - Alessandro Chiuso
- Department of Information Engineering, University of Padova, Padua, Italy
| | - Alessandro Gozzi
- Functional Neuroimaging Laboratory, Center for Neuroscience and Cognitive Systems @ UniTn, Istituto Italiano di Tecnologia, Rovereto, Italy
| | - Alessandra Bertoldo
- Department of Information Engineering, University of Padova, Padua, Italy.
- Padova Neuroscience Center (PNC), Padua, Italy.
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Manjunatha KKH, Baron G, Benozzo D, Silvestri E, Corbetta M, Chiuso A, Bertoldo A, Suweis S, Allegra M. Controlling target brain regions by optimal selection of input nodes. PLoS Comput Biol 2024; 20:e1011274. [PMID: 38215166 PMCID: PMC10810536 DOI: 10.1371/journal.pcbi.1011274] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2023] [Revised: 01/25/2024] [Accepted: 12/04/2023] [Indexed: 01/14/2024] Open
Abstract
The network control theory framework holds great potential to inform neurostimulation experiments aimed at inducing desired activity states in the brain. However, the current applicability of the framework is limited by inappropriate modeling of brain dynamics, and an overly ambitious focus on whole-brain activity control. In this work, we leverage recent progress in linear modeling of brain dynamics (effective connectivity) and we exploit the concept of target controllability to focus on the control of a single region or a small subnetwork of nodes. We discuss when control may be possible with a reasonably low energy cost and few stimulation loci, and give general predictions on where to stimulate depending on the subset of regions one wishes to control. Importantly, using the robustly asymmetric effective connectome instead of the symmetric structural connectome (as in previous research), we highlight the fundamentally different roles in- and out-hubs have in the control problem, and the relevance of inhibitory connections. The large degree of inter-individual variation in the effective connectome implies that the control problem is best formulated at the individual level, but we discuss to what extent group results may still prove useful.
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Affiliation(s)
- Karan Kabbur Hanumanthappa Manjunatha
- Physics and Astronomy Department “Galileo Galilei”, University of Padova, Padova, Italy
- Modeling and Engineering Risk and Complexity, Scuola Superiore Meridionale, Napoli, Italy
| | - Giorgia Baron
- Information Engineering Department, University of Padova, Padova, Italy
| | - Danilo Benozzo
- Information Engineering Department, University of Padova, Padova, Italy
| | - Erica Silvestri
- Information Engineering Department, University of Padova, Padova, Italy
| | - Maurizio Corbetta
- Neuroscience Department, University of Padova, Padova, Italy
- Venetian Institute of Molecular Medicine (VIMM), Padova, Italy
- Padova Neuroscience Center, University of Padova, Padova, Italy
| | - Alessandro Chiuso
- Information Engineering Department, University of Padova, Padova, Italy
| | - Alessandra Bertoldo
- Information Engineering Department, University of Padova, Padova, Italy
- Padova Neuroscience Center, University of Padova, Padova, Italy
| | - Samir Suweis
- Physics and Astronomy Department “Galileo Galilei”, University of Padova, Padova, Italy
- Padova Neuroscience Center, University of Padova, Padova, Italy
| | - Michele Allegra
- Physics and Astronomy Department “Galileo Galilei”, University of Padova, Padova, Italy
- Padova Neuroscience Center, University of Padova, Padova, Italy
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Benozzo D, Baron G, Coletta L, Chiuso A, Gozzi A, Bertoldo A. Macroscale coupling between structural and effective connectivity in the mouse brain. bioRxiv 2023:2023.02.22.529400. [PMID: 36865122 PMCID: PMC9980133 DOI: 10.1101/2023.02.22.529400] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/24/2023]
Abstract
How the emergent functional connectivity (FC) relates to the underlying anatomy (structural connectivity, SC) is one of the biggest questions of modern neuroscience. At the macro-scale level, no one-to-one correspondence between structural and functional links seems to exist. And we posit that to better understand their coupling, two key aspects should be taken into account: the directionality of the structural connectome and the limitations of describing network functions in terms of FC. Here, we employed an accurate directed SC of the mouse brain obtained by means of viral tracers, and related it with single-subject effective connectivity (EC) matrices computed by applying a recently developed DCM to whole-brain resting-state fMRI data. We analyzed how SC deviates from EC and quantified their couplings by conditioning both on the strongest SC links and EC links. We found that when conditioning on the strongest EC links, the obtained coupling follows the unimodal-transmodal functional hierarchy. Whereas the reverse is not true, as there are strong SC links within high-order cortical areas with no corresponding strong EC links. This mismatch is even more clear across networks. Only the connections within sensory motor networks align both in terms of effective and structural strength.
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Affiliation(s)
- Danilo Benozzo
- Department of Information Engineering, University of Padova, Padova, Italy
| | - Giorgia Baron
- Department of Information Engineering, University of Padova, Padova, Italy
| | - Ludovico Coletta
- Functional Neuroimaging Laboratory, Center for Neuroscience and Cognitive Systems @ UniTn, Istituto Italiano di Tecnologia, Rovereto, Italy
| | - Alessandro Chiuso
- Department of Information Engineering, University of Padova, Padova, Italy
| | - Alessandro Gozzi
- Functional Neuroimaging Laboratory, Center for Neuroscience and Cognitive Systems @ UniTn, Istituto Italiano di Tecnologia, Rovereto, Italy
| | - Alessandra Bertoldo
- Department of Information Engineering, University of Padova, Padova, Italy
- Padova Neuroscience Center, Padova, Italy
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Aitkulov A, Marcon L, Chiuso A, Palmieri L, Galtarossa A. Machine Learning Estimation of the Phase at the Fading Points of an OFDR-Based Distributed Sensor. Sensors (Basel) 2022; 23:262. [PMID: 36616860 PMCID: PMC9823760 DOI: 10.3390/s23010262] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 12/19/2022] [Accepted: 12/21/2022] [Indexed: 06/17/2023]
Abstract
The paper reports a machine learning approach for estimating the phase in a distributed acoustic sensor implemented using optical frequency domain reflectometry, with enhanced robustness at the fading points. A neural network configuration was trained using a simulated set of optical signals that were modeled after the Rayleigh scattering pattern of a perturbed fiber. Firstly, the performance of the network was verified using another set of numerically generated scattering profiles to compare the achieved accuracy levels with the standard homodyne detection method. Then, the proposed method was tested on real experimental measurements, which indicated a detection improvement of at least 5.1 dB with respect to the standard approach.
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Affiliation(s)
- Arman Aitkulov
- Department of Information Engineering, University of Padova, Via G. Gradenigo 6/B, 35131 Padova, Italy
| | - Leonardo Marcon
- CERN—European Organization for Nuclear Research, Esplanade des Particules 1, 1211 Meyrin, Switzerland
| | - Alessandro Chiuso
- Department of Information Engineering, University of Padova, Via G. Gradenigo 6/B, 35131 Padova, Italy
| | - Luca Palmieri
- Department of Information Engineering, University of Padova, Via G. Gradenigo 6/B, 35131 Padova, Italy
| | - Andrea Galtarossa
- Department of Information Engineering, University of Padova, Via G. Gradenigo 6/B, 35131 Padova, Italy
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Prando G, Zorzi M, Bertoldo A, Corbetta M, Zorzi M, Chiuso A. Sparse DCM for whole-brain effective connectivity from resting-state fMRI data. Neuroimage 2020; 208:116367. [DOI: 10.1016/j.neuroimage.2019.116367] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Revised: 11/12/2019] [Accepted: 11/13/2019] [Indexed: 12/12/2022] Open
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Bissacco A, Chiuso A, Soatto S. Classification and recognition of dynamical models: the role of phase, independent components, kernels and optimal transport. IEEE Trans Pattern Anal Mach Intell 2007; 29:1958-72. [PMID: 17848777 DOI: 10.1109/tpami.2007.1101] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
We address the problem of performing decision tasks, and in particular classification and recognition, in the space of dynamical models in order to compare time series of data. Motivated by the application of recognition of human motion in image sequences, we consider a class of models that include linear dynamics, both stable and marginally stable (periodic), both minimum and non-minimum phase, driven by non-Gaussian processes. This requires extending existing learning and system identification algorithms to handle periodic modes and nonminimum phase behavior, while taking into account higher-order statistics of the data. Once a model is identified, we define a kernel-based cord distance between models that includes their dynamics, their initial conditions as well as input distribution. This is made possible by a novel kernel defined between two arbitrary (non-Gaussian) distributions, which is computed by efficiently solving an optimal transport problem. We validate our choice of models, inference algorithm, and distance on the tasks of human motion synthesis (sample paths of the learned models), and recognition (nearest-neighbor classification in the computed distance). However, our work can be applied more broadly where one needs to compare historical data while taking into account periodic trends, non-minimum phase behavior, and non-Gaussian input distributions.
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Affiliation(s)
- Alessandro Bissacco
- Computer Science Department, University of California, Los Angeles, CA 91104, USA.
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Chiuso A, Favaro P, Jin H, Soatto S. 3-D Motion and Structure from 2-D Motion Causally Integrated over Time: Implementation. Lecture Notes in Computer Science 2000. [DOI: 10.1007/3-540-45053-x_47] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/10/2023]
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