Large-scale brain network | EPFL Graph Search

Large-scale brain networks (also known as intrinsic brain networks) are collections of widespread brain regions showing functional connectivity by statistical analysis of the fMRI BOLD signal or other recording methods such as EEG, PET and MEG. An emerging paradigm in neuroscience is that cognitive tasks are performed not by individual brain regions working in isolation but by networks consisting of several discrete brain regions that are said to be "functionally connected". Functional connectivity networks may be found using algorithms such as cluster analysis, spatial independent component analysis (ICA), seed based, and others. Synchronized brain regions may also be identified using long-range synchronization of the EEG, MEG, or other dynamic brain signals. The set of identified brain areas that are linked together in a large-scale network varies with cognitive function. When the cognitive state is not explicit (i.e., the subject is at "rest"), the large-scale brain network is a resting state network (RSN). As a physical system with graph-like properties, a large-scale brain network has both nodes and edges and cannot be identified simply by the co-activation of brain areas. In recent decades, the analysis of brain networks was made feasible by advances in imaging techniques as well as new tools from graph theory and dynamical systems. Large-scale brain networks are identified by their function and provide a coherent framework for understanding cognition by offering a neural model of how different cognitive functions emerge when different sets of brain regions join together as self-organized coalitions. The number and composition of the coalitions will vary with the algorithm and parameters used to identify them. In one model, there is only the default mode network and the task-positive network, but most current analyses show several networks, from a small handful to 17. The most common and stable networks are enumerated below. The regions participating in a functional network may be dynamically reconfigured.

Dynamics of amygdala connectivity in bipolar disorders: a longitudinal study across mood states

Dimitri Nestor Alice Van De Ville, Thomas William Arthur Bolton, Maria Giulia Preti, Gwladys Rey, Julian Gaviria

Alterations in activity and connectivity of brain circuits implicated in emotion processing and emotion regulation have been observed during resting-state for different clinical phases of bipolar disorders (BD), but longitudinal investigations across different mood states in the same patients are still rare. Furthermore, measuring dynamics of functional connectivity patterns offers a powerful method to explore changes in the brain's intrinsic functional organization across mood states. We used a novel co-activation pattern (CAP) analysis to explore the dynamics of amygdala connectivity at rest in a cohort of 20 BD patients prospectively followed-up and scanned across distinct mood states: euthymia (20 patients; 39 sessions), depression (12 patients; 18 sessions), or mania/hypomania (14 patients; 18 sessions). We compared them to 41 healthy controls scanned once or twice (55 sessions). We characterized temporal aspects of dynamic fluctuations in amygdala connectivity over the whole brain as a function of current mood. We identified six distinct networks describing amygdala connectivity, among which an interoceptive-sensorimotor CAP exhibited more frequent occurrences during hypomania compared to other mood states, and predicted more severe symptoms of irritability and motor agitation. In contrast, a default-mode CAP exhibited more frequent occurrences during depression compared to other mood states and compared to controls, with a positive association with depression severity. Our results reveal distinctive interactions between amygdala and distributed brain networks in different mood states, and foster research on interoception and default-mode systems especially during the manic and depressive phase, respectively. Our study also demonstrates the benefits of assessing brain dynamics in BD.

SPRINGERNATURE2021

The SONATA data format for efficient description of large-scale network models

Eilif Benjamin Muller, Werner Alfons Hilda Van Geit, Jean-Denis Georges Emile Courcol, Michael Emiel Gevaert, Adrien Michel Achille Devresse, Juan Bautista Hernando Vieites

Increasing availability of comprehensive experimental datasets and of high-performance computing resources are driving rapid growth in scale, complexity, and biological realism of computational models in neuroscience. To support construction and simulation, as well as sharing of such large-scale models, a broadly applicable, flexible, and high-performance data format is necessary. To address this need, we have developed the Scalable Open Network Architecture TemplAte (SONATA) data format. It is designed for memory and computational efficiency and works across multiple platforms. The format represents neuronal circuits and simulation inputs and outputs via standardized files and provides much flexibility for adding new conventions or extensions. SONATA is used in multiple modeling and visualization tools, and we also provide reference Application Programming Interfaces and model examples to catalyze further adoption. SONATA format is free and open for the community to use and build upon with the goal of enabling efficient model building, sharing, and reproducibility.

PLOS2020

Sparse coupled logistic regression to estimate co-activation and modulatory influences of brain regions

Dimitri Nestor Alice Van De Ville, Thomas William Arthur Bolton, Ye Tian

Accurate mapping of the functional interactions between remote brain areas with resting-state functional magnetic resonance imaging requires the quantification of their underlying dynamics. In conventional methodological pipelines, a spatial scale of interest is first selected and dynamic analysis then proceeds at this hypothesised level of complexity. If large-scale functional networks or states are studied, more local regional rearrangements are then not described, potentially missing important neurobiological information. Here, we propose a novel mathematical framework that jointly estimates resting-state functional networks and spatially more localised cross-regional modulations. To do so, the changes in activity of each brain region are modelled by a logistic regression including co-activation coefficients (reflective of network assignment, as they highlight simultaneous activations across areas) and causal interplays (denoting finer regional cross-talks, when one region active at time t modulates the t to t + 1 transition likelihood of another area). A two-parameter l1

IOP PUBLISHING LTD2020

Dynamics of amygdala connectivity in bipolar disorders: a longitudinal study across mood states

Dimitri Nestor Alice Van De Ville, Thomas William Arthur Bolton, Maria Giulia Preti, Gwladys Rey, Julian Gaviria

SPRINGERNATURE2021