Stable representation of information in distributed neural connectivity is critical to function effectively in the world. Despite the dynamic nature of the brain’s functional architecture, ...characterizing its temporal stability within a continuous state has been largely neglected. Here we characterized stability of functional architecture at a dynamic timescale (~1 min) for each brain voxel by measuring the concordance of dynamic functional connectivity (DFC) over time, compared between association and unimodal regions, and established its reliability using test-retest resting-state fMRI data of adults from an open dataset. After the measure of functional stability was established, we further employed another fMRI open dataset which included movie-watching and resting-state data of children and adolescents, to explore how stability was modified by natural viewing from its intrinsic form, with specific focus on the associative and primary visual cortices. The results showed that high-order association regions, especially the default mode network, demonstrated high stability during resting-state scans, while primary sensory-motor cortices revealed relatively lower stability. During movie watching, stability in the primary visual cortex was decreased, which was associated with larger DFC variation with neighboring regions. By contrast, higher-order regions in the ventral and dorsal visual stream demonstrated increased stability. The distribution of functional stability and its modification describes a profile of the brain’s stability property, which may be useful reference for examining distinct mental states and disorders.
•Functional stability is the concordance of dynamic functional connectivity over time.•High-order association regions show higher intrinsic stability than unimodal regions.•Natural viewing task increases stability in associative visual areas.•Natural viewing task decreases stability in primary visual areas.
Rumination is strongly and consistently correlated with depression. Although multiple studies have explored the neural correlates of rumination, findings have been inconsistent and the mechanisms ...underlying rumination remain elusive. Functional brain imaging studies have identified areas in the default mode network (DMN) that appear to be critically involved in ruminative processes. However, a meta-analysis to synthesize the findings of brain regions underlying rumination is currently lacking. Here, we conducted a meta-analysis consisting of experimental tasks that investigate rumination by using Signed Differential Mapping of 14 fMRI studies comprising 286 healthy participants. Furthermore, rather than treat the DMN as a unitary network, we examined the contribution of three DMN subsystems to rumination. Results confirm the suspected association between rumination and DMN activation, specifically implicating the DMN core regions and the dorsal medial prefrontal cortex subsystem. Based on these findings, we suggest a hypothesis of how DMN regions support rumination and present the implications of this model for treating major depressive disorder characterized by rumination.
•Rumination is strongly and consistently correlated with depression.•Meta-analyze the findings of brain regions regarding to rumination.•Specifically examined the contribution of three DMN subsystems to rumination.•Rumination is specifically correlated with the DMN core regions and the dorsal medial prefrontal cortex subsystem.
Resting-state fMRI (RS-fMRI) has been drawing more and more attention in recent years. However, a publicly available, systematically integrated and easy-to-use tool for RS-fMRI data processing is ...still lacking. We developed a toolkit for the analysis of RS-fMRI data, namely the RESting-state fMRI data analysis Toolkit (REST). REST was developed in MATLAB with graphical user interface (GUI). After data preprocessing with SPM or AFNI, a few analytic methods can be performed in REST, including functional connectivity analysis based on linear correlation, regional homogeneity, amplitude of low frequency fluctuation (ALFF), and fractional ALFF. A few additional functions were implemented in REST, including a DICOM sorter, linear trend removal, bandpass filtering, time course extraction, regression of covariates, image calculator, statistical analysis, and slice viewer (for result visualization, multiple comparison correction, etc.). REST is an open-source package and is freely available at http://www.restfmri.net.
The neural underpinnings of rumination can be characterized by its specific dynamic nature. Temporal stability is the stable and consistent representation of information by a distributed neural ...activity and connectivity pattern across brain regions. Although stability is a key feature of the brain's functional architecture, its profiles supporting rumination remain elusive. We characterized the stability of the whole-brain functional architecture during an induced, continuous rumination state and compared it with a well-constrained distraction state as the control condition in a group of healthy participants (N = 40). We further examined the relationship between stability in regions showing a significant effect on the rumination vs. distraction contrast and rumination traits. The variability of dynamic functional connectivities (FCs) among these regions was also explored to determine the potential coupling regions that drove the altered stability pattern during rumination. The results showed that rumination was characterized by a similar but altered stability profile compared with distraction and resting states. Comparison between rumination and distraction revealed that key regions of the default mode network (DMN), such as the medial prefrontal cortex (MPFC) and bilateral parahippocampal gyrus (PHG), which showed decreased stability while frontoparietal control network (FPCN) regions, including the inferior parietal lobule (IPL) and dorsal lateral prefrontal cortex (DLPFC), showed significantly enhanced stability in rumination compared with distraction. Additionally, stability in the MPFC and IPL was related to individual differences in rumination traits. Exploratory analysis of the variation in dynamic FCs suggested that higher stability in the IPL may be related to its less variable FCs with the PHG. Together, these findings implicated that rumination may be supported by the dissociated dynamic nature of hypostability in the DMN and hyperstability in the FPCN.
•Site effects are the primary obstacle for Resting-state fMRI in the big-data era.•We assessed 11 harmonization methods along the statistical spectrum.•We evaluated the removal of site effects and ...the retention of biological effects.•A distribution shift correction method- SMA bested others overall, including ComBat.•We recommend SMA harmonizing Resting-state fMRI and provide practical guidelines.
To embrace big-data neuroimaging, harmonizing the site effect in resting-state functional magnetic resonance imaging (R-fMRI) data fusion is a fundamental challenge. A comprehensive evaluation of potentially effective harmonization strategies, particularly with specifically collected data, has been scarce, especially for R-fMRI metrics. Here, we comprehensively assess harmonization strategies from multiple perspectives, including tests on residual site effect, individual identification, test-retest reliability, and replicability of group-level statistical results, on widely used R-fMRI metrics across various datasets, including data obtained from participants with repetitive measures at different scanners. For individual identifiability (i.e., whether the same subject could be identified across R-fMRI data scanned across different sites), we found that, while most methods decreased site effects, the Subsampling Maximum-mean-distance based distribution shift correction Algorithm (SMA) and parametric unadjusted CovBat outperformed linear regression models, linear mixed models, ComBat series and invariant conditional variational auto-encoder in clustering accuracy. Test-retest reliability was better for SMA and parametric adjusted CovBat than unadjusted ComBat series and parametric unadjusted CovBat in the number of overlapped voxels. At the same time, SMA was superior to the latter in replicability in terms of the Dice coefficient and the scale of brain areas showing sex differences reproducibly observed across datasets. Furthermore, SMA better detected reproducible sex differences of ALFF under the site-sex confounded situation. Moreover, we designed experiments to identify the best target site features to optimize SMA identifiability, test-retest reliability, and stability. We noted both sample size and distribution of the target site matter and introduced a heuristic formula for selecting the target site. In addition to providing practical guidelines, this work can inform continuing improvements and innovations in harmonizing methodologies for big R-fMRI data.
Previous neuroimaging studies have revealed abnormal functional connectivity of brain networks in patients with major depressive disorder (MDD), but findings have been inconsistent. A recent big‐data ...study found abnormal intrinsic functional connectivity within the default mode network in patients with recurrent MDD but not in first‐episode drug‐naïve patients with MDD. This study also provided evidence for reduced default mode network functional connectivity in medicated MDD patients, raising the question of whether previously observed abnormalities may be attributable to antidepressant effects. The present study (ClinicalTrials.gov identifier: NCT03294525) aimed to disentangle the effects of antidepressant treatment from the pathophysiology of MDD and test the medication normalization hypothesis. Forty‐one first‐episode drug‐naïve MDD patients were administrated antidepressant medication (escitalopram or duloxetine) for 8 weeks, with resting‐state functional connectivity compared between posttreatment and baseline. To assess the replicability of the big‐data finding, we also conducted a cross‐sectional comparison of resting‐state functional connectivity between the MDD patients and 92 matched healthy controls. Both Network‐Based Statistic analyses and large‐scale network analyses revealed intrinsic functional connectivity decreases in extensive brain networks after treatment, indicating considerable antidepressant effects. Neither Network‐Based Statistic analyses nor large‐scale network analyses detected significant functional connectivity differences between treatment‐naïve patients and healthy controls. In short, antidepressant effects are widespread across most brain networks and need to be accounted for when considering functional connectivity abnormalities in MDD.
The present study aimed to disentangle the effects of antidepressant treatment from the pathophysiology of MDD and test the medication normalization hypothesis. Both Network‐Based Statistic analyses and large‐scale network analyses revealed intrinsic functional connectivity decreases in extensive brain networks after treatment, while no significant functional connectivity differences were found between treatment‐naïve patients and healthy controls. These results indicate that antidepressant effects are widespread across most brain networks and need to be accounted for when considering functional connectivity abnormalities in MDD.
Brain imaging efforts are being increasingly devoted to decode the functioning of the human brain. Among neuroimaging techniques, resting-state fMRI (R-fMRI) is currently expanding exponentially. ...Beyond the general neuroimaging analysis packages (e.g., SPM, AFNI and FSL), REST and DPARSF were developed to meet the increasing need of user-friendly toolboxes for R-fMRI data processing. To address recently identified methodological challenges of R-fMRI, we introduce the newly developed toolbox, DPABI, which was evolved from REST and DPARSF. DPABI incorporates recent research advances on head motion control and measurement standardization, thus allowing users to evaluate results using stringent control strategies. DPABI also emphasizes test-retest reliability and quality control of data processing. Furthermore, DPABI provides a user-friendly pipeline analysis toolkit for rat/monkey R-fMRI data analysis to reflect the rapid advances in animal imaging. In addition, DPABI includes preprocessing modules for task-based fMRI, voxel-based morphometry analysis, statistical analysis and results viewing. DPABI is designed to make data analysis require fewer manual operations, be less time-consuming, have a lower skill requirement, a smaller risk of inadvertent mistakes, and be more comparable across studies. We anticipate this open-source toolbox will assist novices and expert users alike and continue to support advancing R-fMRI methodology and its application to clinical translational studies.
Functional connectomics is one of the most rapidly expanding areas of neuroimaging research. Yet, concerns remain regarding the use of resting-state fMRI (R-fMRI) to characterize inter-individual ...variation in the functional connectome. In particular, recent findings that “micro” head movements can introduce artifactual inter-individual and group-related differences in R-fMRI metrics have raised concerns. Here, we first build on prior demonstrations of regional variation in the magnitude of framewise displacements associated with a given head movement, by providing a comprehensive voxel-based examination of the impact of motion on the BOLD signal (i.e., motion–BOLD relationships). Positive motion–BOLD relationships were detected in primary and supplementary motor areas, particularly in low motion datasets. Negative motion–BOLD relationships were most prominent in prefrontal regions, and expanded throughout the brain in high motion datasets (e.g., children). Scrubbing of volumes with FD>0.2 effectively removed negative but not positive correlations; these findings suggest that positive relationships may reflect neural origins of motion while negative relationships are likely to originate from motion artifact. We also examined the ability of motion correction strategies to eliminate artifactual differences related to motion among individuals and between groups for a broad array of voxel-wise R-fMRI metrics. Residual relationships between motion and the examined R-fMRI metrics remained for all correction approaches, underscoring the need to covary motion effects at the group-level. Notably, global signal regression reduced relationships between motion and inter-individual differences in correlation-based R-fMRI metrics; Z-standardization (mean-centering and variance normalization) of subject-level maps for R-fMRI metrics prior to group-level analyses demonstrated similar advantages. Finally, our test–retest (TRT) analyses revealed significant motion effects on TRT reliability for R-fMRI metrics. Generally, motion compromised reliability of R-fMRI metrics, with the exception of those based on frequency characteristics — particularly, amplitude of low frequency fluctuations (ALFF). The implications of our findings for decision-making regarding the assessment and correction of motion are discussed, as are insights into potential differences among volume-based metrics of motion.
•Positive but not negative motion-BOLD relationships appear to be neural in origin.•Motion should always be accounted for in group-level analyses.•Global signal regression and Z-standardization mitigate motion effects.•Motion compromises test-retest reliability, and correction strategies improve.
•Holistic thinking and analytic thinking are advanced modes of thinking, which neural mechanisms have not been fully explored.•We used the frame-line task and the triad task, with multivariate ...pattern analysis (MVPA).•We mapped the fundamental neural substrates of holistic thinking and analytic thinking.•We provided a new method to explore the neural representation of cultural constructs.
Holistic and analytic thinking are two distinct modes of thinking used to interpret the world with relative preferences varying across cultures. While most research on these thinking styles has focused on behavioral and cognitive aspects, a few studies have utilized functional magnetic resonance imaging (fMRI) to explore the correlations between brain metrics and self-reported scale scores. Other fMRI studies used single holistic and analytic thinking tasks. As a single task may involve processing in spurious low-level regions, we used two different holistic and analytic thinking tasks, namely the frame-line task and the triad task, to seek convergent brain regions to distinguish holistic and analytic thinking using multivariate pattern analysis (MVPA). Results showed that brain regions fundamental to distinguish holistic and analytic thinking include the bilateral frontal lobes, bilateral parietal lobes, bilateral precentral and postcentral gyrus, bilateral supplementary motor areas, bilateral fusiform, bilateral insula, bilateral angular gyrus, left cuneus, and precuneus, left olfactory cortex, cingulate gyrus, right caudate and putamen. Our study maps brain regions that distinguish between holistic and analytic thinking and provides a new approach to explore the neural representation of cultural constructs. We provide initial evidence connecting culture-related brain regions with language function to explain the origins of cultural differences in cognitive styles.
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