scholarly journals Building Models of Functional Interactions Among Brain Domains that Encode Varying Information Complexity: A Schizophrenia Case Study

2020 ◽  
Author(s):  
Ishaan Batta ◽  
Anees Abrol ◽  
Zening Fu ◽  
Adrian Preda ◽  
Theo G.M. van Erp ◽  
...  
Keyword(s):  
Brain Networks ◽  
Training Data ◽  
Bayesian Optimization ◽  
Functional Interactions ◽  
Building Models ◽  
Complex Architectures ◽  
Neuroimaging Data ◽  
Model Subspace ◽  
Sophisticated Model ◽  
The Brain

ABSTRACTRevealing associations among various structural and functional patterns of the brain can yield highly informative results about the healthy and disordered brain. Studies using neuroimaging data have more recently begun to utilize the information within as well as across various functional and anatomical domains (i.e., groups of brain networks). However, most whole-brain approaches assume similar complexity of interactions throughout the brain. Here we investigate the hypothesis that interactions between brain networks capture varying amounts of complexity, and that we can better capture this information by varying the complexity of the model subspace structure based on available training data. To do this, we employ a Bayesian optimization-based framework known as the Tree Parzen Estimator (TPE) to identify, exploit and analyze patterns of variation in the information encoded by temporal information extracted from functional magnetic resonance imaging (fMRI) subdomains of the brain. Using a repeated cross-validation procedure on a schizophrenia classification task, we demonstrate evidence that interactions between specific functional subdomains are better characterized by more sophisticated model architectures compared to less complicated ones required by the others for optimally contributing towards classification and understanding the brain’s functional interactions. We show that functional subdomains known to be involved in schizophrenia require more complex architectures to optimally unravel discriminatory information about the disorder. Our study points to the need for adaptive, hierarchical learning frameworks that cater differently to the features from different subdomains, not only for a better prediction but also for enabling the identification of features predicting the outcome of interest.

scholarly journals A hands-on tutorial on network and topological neuroscience

2021 ◽  
Author(s):  
Eduarda Gervini Zampieri Centeno ◽  
Giulia Moreni ◽  
Chris Vriend ◽  
Linda Douw ◽  
Fernando Antônio Nóbrega Santos
Keyword(s):  
Brain Networks ◽  
Three Dimensional ◽  
Brain Atlas ◽  
Topological Data Analysis ◽  
Hands On ◽  
Neuroimaging Data ◽  
Efficient Integration ◽  
New Feature ◽  
The Brain ◽  
Network Neuroscience

AbstractThe brain is an extraordinarily complex system that facilitates the efficient integration of information from different regions to execute its functions. With the recent advances in technology, researchers can now collect enormous amounts of data from the brain using neuroimaging at different scales and from numerous modalities. With that comes the need for sophisticated tools for analysis. The field of network neuroscience has been trying to tackle these challenges, and graph theory has been one of its essential branches through the investigation of brain networks. Recently, topological data analysis has gained more attention as an alternative framework by providing a set of metrics that go beyond pair-wise connections and offer improved robustness against noise. In this hands-on tutorial, our goal is to provide the computational tools to explore neuroimaging data using these frameworks and to facilitate their accessibility, data visualisation, and comprehension for newcomers to the field. We will start by giving a concise (and by no means complete) overview of the field to introduce the two frameworks, and then explain how to compute both well-established and newer metrics on resting-state functional magnetic resonance imaging. We use an open-source language (Python) and provide an accompanying publicly available Jupyter Notebook that uses data from the 1000 Functional Connectomes Project. Moreover, we would like to highlight one part of our notebook that is solely dedicated to realistic visualisation of high order interactions in brain networks. This pipeline provides three-dimensional (3-D) plots of pair-wise and higher-order interactions projected in a brain atlas, a new feature tailor-made for network neuroscience.

scholarly journals Decoding task-specific cognitive states with slow, directed functional networks in the human brain

2019 ◽  
Author(s):  
Devarajan Sridharan ◽  
Shagun Ajmera ◽  
Hritik Jain ◽  
Mali Sundaresan
Keyword(s):  
Machine Learning ◽  
Functional Connectivity ◽  
Human Brain ◽  
Brain Networks ◽  
Fmri Data ◽  
Invasive Technique ◽  
Functional Interactions ◽  
Cognitive States ◽  
Human Connectome Project ◽  
The Brain

AbstractFlexible functional interactions among brain regions mediate critical cognitive functions. Such interactions can be measured from functional magnetic resonance imaging (fMRI) data with either instantaneous (zero-lag) or lag-based (time-lagged) functional connectivity; only the latter approach permits inferring directed functional interactions. Yet, the fMRI hemodynamic response is slow, and sampled at a timescale (seconds) several orders of magnitude slower than the underlying neural dynamics (milliseconds). It is, therefore, widely held that lag-based fMRI functional connectivity, measured with approaches like as Granger-Geweke causality (GC), provides spurious and unreliable estimates of underlying neural interactions. Experimental verification of this claim has proven challenging because neural ground truth connectivity is often unavailable concurrently with fMRI recordings. We address this challenge by combining machine learning with GC functional connectivity estimation. We estimated instantaneous and lag-based GC functional connectivity networks using fMRI data from 1000 participants, drawn from the Human Connectome Project database. A linear classifier, trained on either instantaneous or lag-based GC, reliably discriminated among seven different task and resting brain states, with over 80% cross-validation accuracy. With network simulations, we demonstrate that instantaneous and lag-based GC exploited interactions at fast and slow timescales, respectively, to achieve robust classification. With human fMRI data, instantaneous and lag-based GC identified distinct, cognitive core networks. Finally, variations in GC connectivity explained inter-individual variations in a variety of cognitive scores. Our findings show that instantaneous and lag-based methods reveal complementary aspects of functional connectivity in the brain, and suggest that slow, directed functional interactions, estimated with fMRI, provide robust markers of behaviorally relevant cognitive states.Author SummaryFunctional MRI (fMRI) is a leading, non-invasive technique for mapping networks in the human brain. Yet, fMRI signals are noisy and sluggish, and fMRI scans are acquired at a timescale of seconds, considerably slower than the timescale of neural spiking (milliseconds). Can fMRI, then, be used to infer dynamic processes in the brain such as the direction of information flow among brain networks? We sought to answer this question by applying machine learning to fMRI scans acquired from 1000 participants in the Human Connectome Project (HCP) database. We show that directed brain networks, estimated with a technique known as Granger-Geweke Causality (GC), accurately predicts individual subjects’ task-specific cognitive states inside the scanner, and also explains variations in a variety of behavioral scores across individuals. We propose that directed functional connectivity, as estimated with fMRI-GC, is relevant for understanding human cognitive function.

Lessons From the Neural Bases of Speech and Voice

2011 ◽  
Vol 21 (1) ◽  
pp. 5-14
Author(s):  
Christy L. Ludlow
Keyword(s):  
Brain Networks ◽  
Neural Substrates ◽  
Voice Behavior ◽  
Therapeutic Approaches ◽  
Neural Bases ◽  
Sound Foundation ◽  
The Brain ◽  
Normal Speech

The premise of this article is that increased understanding of the brain bases for normal speech and voice behavior will provide a sound foundation for developing therapeutic approaches to establish or re-establish these functions. The neural substrates involved in speech/voice behaviors, the types of muscle patterning for speech and voice, the brain networks involved and their regulation, and how they can be externally modulated for improving function will be addressed.

Finding Community of Brain Networks Based on Neighbor Index and DPSO with Dynamic Crossover

2020 ◽  
Vol 15 (4) ◽  
pp. 287-299
Author(s):  
Jie Zhang ◽  
Junhong Feng ◽  
Fang-Xiang Wu
Keyword(s):  
Brain Function ◽  
Brain Networks ◽  
Discrete Particle Swarm Optimization ◽  
Mri Brain ◽  
Mutation Operators ◽  
Neural Unit ◽  
Crossover And Mutation ◽  
The Brain ◽  
Index Table ◽  
Dynamic Crossover

Background: : The brain networks can provide us an effective way to analyze brain function and brain disease detection. In brain networks, there exist some import neural unit modules, which contain meaningful biological insights. Objective:: Therefore, we need to find the optimal neural unit modules effectively and efficiently. Method:: In this study, we propose a novel algorithm to find community modules of brain networks by combining Neighbor Index and Discrete Particle Swarm Optimization (DPSO) with dynamic crossover, abbreviated as NIDPSO. The differences between this study and the existing ones lie in that NIDPSO is proposed first to find community modules of brain networks, and dose not need to predefine and preestimate the number of communities in advance. Results: : We generate a neighbor index table to alleviate and eliminate ineffective searches and design a novel coding by which we can determine the community without computing the distances amongst vertices in brain networks. Furthermore, dynamic crossover and mutation operators are designed to modify NIDPSO so as to alleviate the drawback of premature convergence in DPSO. Conclusion: The numerical results performing on several resting-state functional MRI brain networks demonstrate that NIDPSO outperforms or is comparable with other competing methods in terms of modularity, coverage and conductance metrics.

scholarly journals The Modular Organization of Pain Brain Networks: An fMRI Graph Analysis Informed by Intracranial EEG

2020 ◽  
Vol 1 (1) ◽  
Author(s):  
Camille Fauchon ◽  
David Meunier ◽  
Isabelle Faillenot ◽  
Florence B Pomares ◽  
Hélène Bastuji ◽  
...  
Keyword(s):  
Information Integration ◽  
Functional Organization ◽  
Brain Connectivity ◽  
Brain Networks ◽  
Modular Organization ◽  
Noxious Heat ◽  
Intracranial Eeg ◽  
Brain Connectome ◽  
Posterior Parietal ◽  
The Brain

Abstract Intracranial EEG (iEEG) studies have suggested that the conscious perception of pain builds up from successive contributions of brain networks in less than 1 s. However, the functional organization of cortico-subcortical connections at the multisecond time scale, and its accordance with iEEG models, remains unknown. Here, we used graph theory with modular analysis of fMRI data from 60 healthy participants experiencing noxious heat stimuli, of whom 36 also received audio stimulation. Brain connectivity during pain was organized in four modules matching those identified through iEEG, namely: 1) sensorimotor (SM), 2) medial fronto-cingulo-parietal (default mode-like), 3) posterior parietal-latero-frontal (central executive-like), and 4) amygdalo-hippocampal (limbic). Intrinsic overlaps existed between the pain and audio conditions in high-order areas, but also pain-specific higher small-worldness and connectivity within the sensorimotor module. Neocortical modules were interrelated via “connector hubs” in dorsolateral frontal, posterior parietal, and anterior insular cortices, the antero-insular connector being most predominant during pain. These findings provide a mechanistic picture of the brain networks architecture and support fractal-like similarities between the micro-and macrotemporal dynamics associated with pain. The anterior insula appears to play an essential role in information integration, possibly by determining priorities for the processing of information and subsequent entrance into other points of the brain connectome.

scholarly journals Effects of a Motor Imagery Task on Functional Brain Network Community Structure in Older Adults: Data from the Brain Networks and Mobility Function (B-NET) Study

2021 ◽  
Vol 11 (1) ◽  
pp. 118
Author(s):  
Blake R. Neyland ◽  
Christina E. Hugenschmidt ◽  
Robert G. Lyday ◽  
Jonathan H. Burdette ◽  
Laura D. Baker ◽  
...  
Keyword(s):  
Older Adults ◽  
Graph Theory ◽  
Community Structure ◽  
Resting State ◽  
Brain Networks ◽  
Brain Network ◽  
Functional Brain ◽  
Network Community ◽  
Functional Brain Networks ◽  
The Brain

Elucidating the neural correlates of mobility is critical given the increasing population of older adults and age-associated mobility disability. In the current study, we applied graph theory to cross-sectional data to characterize functional brain networks generated from functional magnetic resonance imaging data both at rest and during a motor imagery (MI) task. Our MI task is derived from the Mobility Assessment Tool–short form (MAT-sf), which predicts performance on a 400 m walk, and the Short Physical Performance Battery (SPPB). Participants (n = 157) were from the Brain Networks and Mobility (B-NET) Study (mean age = 76.1 ± 4.3; % female = 55.4; % African American = 8.3; mean years of education = 15.7 ± 2.5). We used community structure analyses to partition functional brain networks into communities, or subnetworks, of highly interconnected regions. Global brain network community structure decreased during the MI task when compared to the resting state. We also examined the community structure of the default mode network (DMN), sensorimotor network (SMN), and the dorsal attention network (DAN) across the study population. The DMN and SMN exhibited a task-driven decline in consistency across the group when comparing the MI task to the resting state. The DAN, however, displayed an increase in consistency during the MI task. To our knowledge, this is the first study to use graph theory and network community structure to characterize the effects of a MI task, such as the MAT-sf, on overall brain network organization in older adults.

scholarly journals Washing away your sins in the brain: physical cleaning and priming of cleaning recruit different brain networks after moral threat

2017 ◽  
Vol 12 (7) ◽  
pp. 1149-1158 ◽  
Author(s):  
Honghong Tang ◽  
Xiaping Lu ◽  
Rui Su ◽  
Zilu Liang ◽  
Xiaoqin Mai ◽  
...  
Keyword(s):  
Brain Networks ◽  
The Brain

scholarly journals Group-level progressive alterations in brain connectivity patterns revealed by diffusion-tensor brain networks across severity stages in Alzheimer’s disease

2017 ◽  
Author(s):  
J. Rasero ◽  
C. Alonso-Montes ◽  
I. Diez ◽  
L. Olabarrieta-Landa ◽  
L. Remaki ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Cognitive Impairment ◽  
Mild Cognitive Impairment ◽  
Disease Severity ◽  
Diffusion Tensor ◽  
Brain Networks ◽  
Stage Ii ◽  
Group Level ◽  
The Brain

AbstractAlzheimer’s disease (AD) is a chronically progressive neurodegenerative disease highly correlated to aging. Whether AD originates by targeting a localized brain area and propagates to the rest of the brain across disease-severity progression is a question with an unknown answer. Here, we aim to provide an answer to this question at the group-level by looking at differences in diffusion-tensor brain networks. In particular, making use of data from Alzheimer's Disease Neuroimaging Initiative (ADNI), four different groups were defined (all of them matched by age, sex and education level): G1 (N1=36, healthy control subjects, Control), G2 (N2=36, early mild cognitive impairment, EMCI), G3 (N3=36, late mild cognitive impairment, LMCI) and G4 (N4=36, AD). Diffusion-tensor brain networks were compared across three disease stages: stage I 3(Control vs EMCI), stage II (Control vs LMCI) and stage III (Control vs AD). The group comparison was performed using the multivariate distance matrix regression analysis, a technique that was born in genomics and was recently proposed to handle brain functional networks, but here applied to diffusion-tensor data. The results were three-fold: First, no significant differences were found in stage I. Second, significant differences were found in stage II in the connectivity pattern of a subnetwork strongly associated to memory function (including part of the hippocampus, amygdala, entorhinal cortex, fusiform gyrus, inferior and middle temporal gyrus, parahippocampal gyrus and temporal pole). Third, a widespread disconnection across the entire AD brain was found in stage III, affecting more strongly the same memory subnetwork appearing in stage II, plus the other new subnetworks,including the default mode network, medial visual network, frontoparietal regions and striatum. Our results are consistent with a scenario where progressive alterations of connectivity arise as the disease severity increases and provide the brain areas possibly involved in such a degenerative process. Further studies applying the same strategy to longitudinal data are needed to fully confirm this scenario.

scholarly journals Brain network dynamics correlate with personality traits

2019 ◽  
Author(s):  
Aya Kabbara ◽  
Veronique Paban ◽  
Arnaud Weill ◽  
Julien Modolo ◽  
Mahmoud Hassan
Keyword(s):  
Functional Connectivity ◽  
Personality Traits ◽  
Resting State ◽  
Brain Networks ◽  
Neural Substrates ◽  
Brain Network ◽  
Functional Brain ◽  
Human Connectome Project ◽  
Functional Brain Networks ◽  
The Brain

AbstractIntroductionIdentifying the neural substrates underlying the personality traits is a topic of great interest. On the other hand, it is now established that the brain is a dynamic networked system which can be studied using functional connectivity techniques. However, much of the current understanding of personality-related differences in functional connectivity has been obtained through the stationary analysis, which does not capture the complex dynamical properties of brain networks.ObjectiveIn this study, we aimed to evaluate the feasibility of using dynamic network measures to predict personality traits.MethodUsing the EEG/MEG source connectivity method combined with a sliding window approach, dynamic functional brain networks were reconstructed from two datasets: 1) Resting state EEG data acquired from 56 subjects. 2) Resting state MEG data provided from the Human Connectome Project. Then, several dynamic functional connectivity metrics were evaluated.ResultsSimilar observations were obtained by the two modalities (EEG and MEG) according to the neuroticism, which showed a negative correlation with the dynamic variability of resting state brain networks. In particular, a significant relationship between this personality trait and the dynamic variability of the temporal lobe regions was observed. Results also revealed that extraversion and openness are positively correlated with the dynamics of the brain networks.ConclusionThese findings highlight the importance of tracking the dynamics of functional brain networks to improve our understanding about the neural substrates of personality.

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