The past few years have seen an emergence of approaches that leverage temporal changes in whole-brain patterns of functional connectivity (the chronnectome). In this chronnectome study, we ...investigate the replicability of the human brain's inter-regional coupling dynamics during rest by evaluating two different dynamic functional network connectivity (dFNC) analysis frameworks using 7 500 functional magnetic resonance imaging (fMRI) datasets. To quantify the extent to which the emergent functional connectivity (FC) patterns are reproducible, we characterize the temporal dynamics by deriving several summary measures across multiple large, independent age-matched samples. Reproducibility was demonstrated through the existence of basic connectivity patterns (FC states) amidst an ensemble of inter-regional connections. Furthermore, application of the methods to conservatively configured (statistically stationary, linear and Gaussian) surrogate datasets revealed that some of the studied state summary measures were indeed statistically significant and also suggested that this class of null model did not explain the fMRI data fully. This extensive testing of reproducibility of similarity statistics also suggests that the estimated FC states are robust against variation in data quality, analysis, grouping, and decomposition methods. We conclude that future investigations probing the functional and neurophysiological relevance of time-varying connectivity assume critical importance.
•Replicability in dynamic functional connectivity state measures was investigated.•Twenty-eight samples each with two hundred and fifty rest-fMRI datasets were studied.•State profiles were modelled using two (clustering and fuzzy meta-state) approaches.•Both approaches showed high consistency for a range of model orders.•Surrogate testing confirmed state summary measures to be statistically significant.
Functional magnetic resonance imaging (fMRI) has become a major technique for studying cognitive function and its disruption in mental illness, including schizophrenia. The major proportion of ...imaging studies focused primarily upon identifying regions which hemodynamic response amplitudes covary with particular stimuli and differentiate between patient and control groups. In addition to such amplitude based comparisons, one can estimate temporal correlations and compute maps of functional connectivity between regions which include the variance associated with event-related responses as well as intrinsic fluctuations of hemodynamic activity. Functional connectivity maps can be computed by correlating all voxels with a seed region when a spatial prior is available. An alternative are multivariate decompositions such as independent component analysis (ICA) which extract multiple components, each of which is a spatially distinct map of voxels with a common time course. Recent work has shown that these networks are pervasive in relaxed resting and during task performance and hence provide robust measures of intact and disturbed brain activity. This in turn bears the prospect of yielding biomarkers for schizophrenia, which can be described both in terms of disrupted local processing as well as altered global connectivity between large-scale networks. In this review we will summarize functional connectivity measures with a focus upon work with ICA and discuss the meaning of intrinsic fluctuations. In addition, examples of how brain networks have been used for classification of disease will be shown. We present work with functional network connectivity, an approach that enables the evaluation of the interplay between multiple networks and how they are affected in disease. We conclude by discussing new variants of ICA for extracting maximally group discriminative networks from data. In summary, it is clear that identification of brain networks and their inter-relationships with fMRI has great potential to improve our understanding of schizophrenia.
Functional correspondences are known to exist within the brains of both human and non-human primates however, our understanding of this phenomenon remains largely incomplete. The examination of the ...topological characteristics inherent in whole-brain functional connectivity bears immense promise in elucidating shared as well as distinctive patterns across different species. In this investigation, we applied topological graph analysis to brain networks and scrutinized the congruencies and disparities within the connectomes of human and marmoset monkey brains. The findings brought to light noteworthy similarities in functional connectivity patterns distributed across the entire brain, with a particular emphasis on the dorsal attention network, default mode network and visual network. Moreover, we discerned unique neural connections between humans and marmosets during both resting and task-oriented states. In essence, our study reveals a combination of shared and divergent functional brain connections underlying spontaneous and specific cognitive functions across these two species.
For successful biomarker discovery, it is essential to develop computational frameworks that summarize high-dimensional neuroimaging data in terms of involved sub-systems of the brain, while also ...revealing underlying heterogeneous functional and structural changes covarying with specific cognitive and biological traits. However, unsupervised decompositions do not inculcate clinical assessment information, while supervised approaches extract only individual feature importance, thereby impeding qualitative interpretation at the level of subspaces.
We present a novel framework to extract robust multimodal brain subspaces associated with changes in a given cognitive or biological trait. Our approach involves active subspace learning on the gradients of a trained machine learning model followed by clustering to extract and summarize the most salient and consistent subspaces associated with the target variable.
Through a rigorous cross-validation procedure on an Alzheimer’s disease (AD) dataset, our framework successfully extracts multimodal subspaces specific to a given clinical assessment (e.g., memory and other cognitive skills), and also retains predictive performance in standard machine learning algorithms. We also show that the salient active subspace directions occur consistently across randomly sub-sampled repetitions of the analysis.
Compared to existing unsupervised decompositions based on principle component analysis, the subspace components in our framework retain higher predictive information.
As an important step towards biomarker discovery, our framework not only uncovers AD-related brain regions in the associated brain subspaces, but also enables automated identification of multiple underlying structural and functional sub-systems of the brain that collectively characterize changes in memory and proficiency in cognitive skills related to brain disorders like AD.
•A method to detect multiple underlying subspaces in the brain associated with a trait.•Multimodal active subspaces fuse structural and functional features of the brain.•Active subspaces retain predictive information for brain disorders.•Experiments with Alzheimer’s related scores show successful subspace detection.
Abstract Default mode network (DMN) has been reported altered in schizophrenia (SZ) using static connectivity analysis. However, the studies on dynamic characteristics of DMN in SZ are still limited. ...In this work, we compare dynamic connectivity within DMN between 82 healthy controls (HC) and 82 SZ patients using resting-state fMRI. Firstly, dynamic DMN was computed using a sliding time window method for each subject. Then, the overall connectivity strengths were compared between two groups. Furthermore, we estimated functional connectivity states using K-means clustering, and then investigated group differences with respect to the connectivity strengths in states, the dwell time in each state, and the transition times between states. Finally, graph metrics of time-varying connectivity patterns and connectivity states were assessed. Results suggest that measured by the overall connectivity, HC showed stronger inter-subsystem interaction than patients. Compared to HC, patients spent more time in the states with nodes sparsely connected. For each state, SZ patients presented relatively weaker connectivity strengths mainly in inter-subsystem. Patients also exhibited lower values in averaged node strength, clustering coefficient, global efficiency, and local efficiency than HC. In summary, our findings indicate that SZ show impaired interaction among DMN subsystems, with a reduced central role for posterior cingulate cortex (PCC) and anterior medial prefrontal cortex (aMPFC) hubs as well as weaker interaction between dorsal medial prefrontal cortex (dMPFC) subsystem and medial temporal lobe (MTL) subsystem. For SZ, decreased integration of DMN may be associated with impaired ability in making self-other distinctions and coordinating present mental states with episodic decisions about future.
Schizophrenia (SZ) is a severe neuropsychiatric disorder. A leading hypothesis is that SZ is a brain dysconnection syndrome, involving abnormal interactions between widespread brain networks. Resting ...state functional magnetic resonance imaging (R-fMRI) is a powerful tool to explore the dysconnectivity of brain networks in SZ and other disorders. Seed-based functional connectivity analysis, spatial independent component analysis (ICA), and graph theory-based analysis are popular methods to quantify brain network connectivity in R-fMRI data. Widespread network dysconnectivity in SZ has been observed using both seed-based analysis and ICA, although most seed-based studies report decreased connectivity while ICA studies report both increases and decreases. Importantly, most of the findings from both techniques are also associated with typical symptoms of the illness. Disrupted topological properties and altered modular community structure of brain system in SZ have been shown using graph theory-based analysis. Overall, the resting-state findings regarding brain networks deficits have advanced our understanding of the underlying pathology of SZ. In this article, we review aberrant brain connectivity networks in SZ measured in R-fMRI by the above approaches, and discuss future challenges.
Although both resting and task-induced functional connectivity (FC) have been used to characterize the human brain and cognitive abilities, the potential of task-induced FCs in individualized ...prediction for out-of-scanner cognitive traits remains largely unexplored. A recent study Greene et al. (2018) predicted the fluid intelligence scores using FCs derived from rest and multiple task conditions, suggesting that task-induced brain state manipulation improved prediction of individual traits. Here, using a large dataset incorporating fMRI data from rest and 7 distinct task conditions, we replicated the original study by employing a different machine learning approach, and applying the method to predict two reading comprehension-related cognitive measures. Consistent with their findings, we found that task-based machine learning models often outperformed rest-based models. We also observed that combining multi-task fMRI improved prediction performance, yet, integrating the more fMRI conditions can not necessarily ensure better predictions. Compared with rest, the predictive FCs derived from language and working memory tasks were highlighted with more predictive power in predominantly default mode and frontoparietal networks. Moreover, prediction models demonstrated high stability to be generalizable across distinct cognitive states. Together, this replication study highlights the benefit of using task-based FCs to reveal brain-behavior relationships, which may confer more predictive power and promote the detection of individual differences of connectivity patterns underlying relevant cognitive traits, providing strong evidence for the validity and robustness of the original findings.
•Functional connectivity can be used to predict reading comprehension abilities.•Task based models outperformed rest-based models in cognition prediction.•Combining connectomes from multiple fMRI states improved prediction performance.•Prediction models can be generalized across distinct cognitive states.
Abstract Background The cognitive deficits of schizophrenia are largely resistant to current treatments and thus are a lifelong illness burden. The Measurement and Treatment Research to Improve ...Cognition in Schizophrenia (MATRICS) Consensus Cognitive Battery (MCCB) provides a reliable and valid assessment of cognition across major cognitive domains; however, the multimodal brain alterations specifically associated with MCCB in schizophrenia have not been examined. Methods The interrelationships between MCCB and the abnormalities seen in three types of neuroimaging-derived maps—fractional amplitude of low-frequency fluctuations (fALFF) from resting-state functional magnetic resonance imaging (MRI), gray matter (GM) density from structural MRI, and fractional anisotropy from diffusion MRI—were investigated by using multiset canonical correlation analysis in data from 47 schizophrenia patients treated with antipsychotic medications and 50 age-matched healthy control subjects. Results One multimodal component (canonical variant 8) was identified as both group differentiating and significantly correlated with the MCCB composite. It demonstrated 1) increased cognitive performance associated with higher fALFF (intensity of regional spontaneous brain activity) and higher GM volumes in thalamus, striatum, hippocampus, and the mid-occipital region, with co-occurring fractional anisotropy changes in superior longitudinal fascicules, anterior thalamic radiation, and forceps major; 2) higher fALFF but lower GM volume in dorsolateral prefrontal cortex related to worse cognition in schizophrenia; and 3) distinct domains of MCCB might exhibit dissociable multimodal signatures, e.g., increased fALFF in inferior parietal lobule particularly correlated with decreased social cognition. Medication dose did not relate to these findings in schizophrenia. Conclusions Our results suggest linked functional and structural deficits in distributed cortico-striato-thalamic circuits may be closely related to MCCB-measured cognitive impairments in schizophrenia.
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