UNASSIGNED: Functional magnetic resonance imaging (fMRI) has become a fundamental tool for studying brain function. However, the presence of serial correlations in fMRI data complicates data analysis, violates the statistical assumptions of analyses methods, and can lead to incorrect conclusions in fMRI studies.
UNASSIGNED: In this paper, we show that conventional whitening procedures designed for data with longer repetition times (TRs) (>2 s) are inadequate for the increasing use of short-TR fMRI data. Furthermore, we comprehensively investigate the shortcomings of existing whitening methods and introduce an iterative whitening approach named \"IDAR\" (Iterative Data-adaptive Autoregressive model) to address these shortcomings. IDAR employs high-order autoregressive (AR) models with flexible and data-driven orders, offering the capability to model complex serial correlation structures in both short-TR and long-TR fMRI datasets.
UNASSIGNED: Conventional whitening methods, such as AR(1), ARMA(1,1), and higher-order AR, were effective in reducing serial correlation in long-TR data but were largely ineffective in even reducing serial correlation in short-TR data. In contrast, IDAR significantly outperformed conventional methods in addressing serial correlation, power, and Type-I error for both long-TR and especially short-TR data. However, IDAR could not simultaneously address residual correlations and inflated Type-I error effectively.
UNASSIGNED: This study highlights the urgent need to address the problem of serial correlation in short-TR (< 1 s) fMRI data, which are increasingly used in the field. Although IDAR can address this issue for a wide range of applications and datasets, the complexity of short-TR data necessitates continued exploration and innovative approaches. These efforts are essential to simultaneously reduce serial correlations and control Type-I error rates without compromising analytical power.

Even before the advent of fMRI, the amygdala occupied a central space in the affective neurosciences. Yet this amygdala-centred view on emotion processing gained even wider acceptance after the inception of fMRI in the early 1990s, a landmark that triggered a goldrush of fMRI studies targeting the amygdala in vivo. Initially, this amygdala fMRI research was mostly confined to task-activation studies measuring the magnitude of the amygdala\'s response to emotional stimuli. Later, interest began to shift more towards the study of the amygdala\'s resting-state functional connectivity and task-based psychophysiological interactions. Later still, the test-retest reliability of amygdala fMRI came under closer scrutiny, while at the same time, amygdala-based real-time fMRI neurofeedback gained widespread popularity. Each of these major subdomains of amygdala fMRI research has left its marks on the field of affective neuroscience at large. The purpose of this review is to provide a critical assessment of this literature. By integrating the insights garnered by these research branches, we aim to answer the question: What part (if any) can amygdala fMRI still play within the current landscape of affective neuroscience? Our findings show that serious questions can be raised with regard to both the reliability and validity of amygdala fMRI. These conclusions force us to cast doubt on the continued viability of amygdala fMRI as a core pilar of the affective neurosciences.

Resting-state brain networks (RSNs) have been widely applied in health and disease, but the interpretation of RSNs in terms of the underlying neural activity is unclear. To address this fundamental question, we conducted simultaneous recordings of whole-brain resting-state functional magnetic resonance imaging (rsfMRI) and electrophysiology signals in two separate brain regions of rats. Our data reveal that for both recording sites, spatial maps derived from band-specific local field potential (LFP) power can account for up to 90% of the spatial variability in RSNs derived from rsfMRI signals. Surprisingly, the time series of LFP band power can only explain to a maximum of 35% of the temporal variance of the local rsfMRI time course from the same site. In addition, regressing out time series of LFP power from rsfMRI signals has minimal impact on the spatial patterns of rsfMRI-based RSNs. This disparity in the spatial and temporal relationships between resting-state electrophysiology and rsfMRI signals suggests that electrophysiological activity alone does not fully explain the effects observed in the rsfMRI signal, implying the existence of an rsfMRI component contributed by \'electrophysiology-invisible\' signals. These findings offer a novel perspective on our understanding of RSN interpretation.
The brain contains many cells known as neurons that send and receive messages in the form of electrical signals. The neurons in different regions of the brain must coordinate their activities to enable the brain to operate properly. Researchers often use a method called resting-state functional magnetic resonance imaging (rsfMRI) to study how different areas of the brain work together. This method indirectly measures brain activity by detecting the changes in blood flow to different areas of the brain. Regions that are working together will become active (that is, have higher blood flow and corresponding rsfMRI signal) and inactive (have lower blood flow and a lower rsfMRI signal) at the same time. These coordinated patterns of brain activity are known as “resting-state brain networks” (RSNs). Previous studies have identified RSNs in many different situations, but we still do not fully understand how these changes in blood flow are related to what is happening in the neurons themselves. To address this question, Tu et al. performed rsfMRI while also measuring the electrical activity (referred to as electrophysiology signals) in two distinct regions of the brains of rats. The team then used the data to generate maps of RSNs in those brain regions. This revealed that rsfMRI signals and electrophysiology signals produced almost identical maps in terms of the locations of the RSNs. However, the electrophysiology signals only contributed a small amount to the changes in the local rsfMRI signals over time at the same recording site. This suggests that RSNs may arise from cell activities that are not detectable by electrophysiology but do regulate blood flow to neurons. The findings of Tu et al. offer a new perspective for interpreting how rsfMRI signals relate to the activities of neurons. Further work is needed to explore all the features of the electrophysiology signals and test other methods to compare these features with rsfMRI signals in the same locations.

Self-ambivalence, a prevalent phenomenon in daily life, has been increasingly substantiated by research. It refers to conflicting self-views and evaluations, primarily concerning self-worth and morality. Previous behavioral research has distinguished self-worth and moral ambivalence, but it remains unclear whether they have separable neural bases. The present study addressed this question by examining resting-state brain activity (i.e., the fractional amplitude of low-frequency fluctuations, fALFF) and connectivity (i.e., resting-state functional connectivity, RSFC) in 112 college students. The results found that self-worth ambivalence was positively related to the fALFF in the orbitofrontal cortex (OFC) and left superior parietal lobule (SPL). The RSFC strength between the SPL and precuneus/posterior cingulate cortex (PCC) was positively related to self-worth ambivalence. Moral ambivalence was positively associated with the fALFF in the left SPL (extending into the temporoparietal junction) and right SPL. The RSFC strengths between the left SPL/TPJ and OFC, as well as the RSFC strengths between the right SPL as a seed and the bilateral middle and inferior temporal gyrus, were associated with moral ambivalence. Overall, the neural bases of self-worth and moral ambivalence are associated with the SPL and OFC, involved in attentional alertness and value representation, respectively. Additionally, the neural basis of moral ambivalence is associated with the TPJ, responsible for mentalizing.

Major depressive disorder (MDD) is a debilitating mental health condition that poses significant risks and burdens. Resting-state functional magnetic resonance imaging (fMRI) has emerged as a promising tool in investigating the neural mechanisms underlying MDD. However, a comprehensive bibliometric analysis of resting-state fMRI in MDD is currently lacking. Here, we aimed to thoroughly explore the trends and frontiers of resting-state fMRI in MDD research. The relevant publications were retrieved from the Web of Science database for the period between 1998 and 2022, and the CiteSpace software was employed to identify the influence of authors, institutions, countries/regions, and the latest research trends. A total of 1501 publications met the search criteria, revealing a gradual increase in the number of annual publications over the years. China contributed the largest publication output, accounting for the highest percentage among all countries. Particularly, the University of Electronic Science and Technology of China, Capital Medical University, and Harvard Medical School were identified as key institutions that have made substantial contributions to this growth. Neuroimage, Biological Psychiatry, Journal of Affective Disorders, and Proceedings of the National Academy of Sciences of the United States of America are among the influential journals in the field of resting-state fMRI research in MDD. Burst keywords analysis suggest the emerging research frontiers in this field are characterized by prominent keywords such as dynamic functional connectivity, cognitive control network, transcranial brain stimulation, and childhood trauma. Overall, our study provides a systematic overview into the historical development, current status, and future trends of resting-state fMRI in MDD, thus offering a useful guide for researchers to plan their future research.

UNASSIGNED: Trait mindfulness refers to one\'s disposition or tendency to pay attention to their experiences in the present moment, in a non-judgmental and accepting way. Trait mindfulness has been robustly associated with positive mental health outcomes, but its neural underpinnings are poorly understood. Prior resting-state fMRI studies have associated trait mindfulness with within- and between-network connectivity of the default-mode (DMN), fronto-parietal (FPN), and salience networks. However, it is unclear how generalizable the findings are, how they relate to different components of trait mindfulness, and how other networks and brain areas may be involved.
UNASSIGNED: To address these gaps, we conducted the largest resting-state fMRI study of trait mindfulness to-date, consisting of a pre-registered connectome predictive modeling analysis in 367 adults across three samples collected at different sites.
UNASSIGNED: In the model-training dataset, we did not find connections that predicted overall trait mindfulness, but we identified neural models of two mindfulness subscales, Acting with Awareness and Non-judging. Models included both positive networks (sets of pairwise connections that positively predicted mindfulness with increasing connectivity) and negative networks, which showed the inverse relationship. The Acting with Awareness and Non-judging positive network models showed distinct network representations involving FPN and DMN, respectively. The negative network models, which overlapped significantly across subscales, involved connections across the whole brain with prominent involvement of somatomotor, visual and DMN networks. Only the negative networks generalized to predict subscale scores out-of-sample, and not across both test datasets. Predictions from both models were also negatively correlated with predictions from a well-established mind-wandering connectome model.
UNASSIGNED: We present preliminary neural evidence for a generalizable connectivity models of trait mindfulness based on specific affective and cognitive facets. However, the incomplete generalization of the models across all sites and scanners, limited stability of the models, as well as the substantial overlap between the models, underscores the difficulty of finding robust brain markers of mindfulness facets.

UNASSIGNED: Acute unilateral vestibulopathy (AUVP) is the second leading cause of peripheral vestibular vertigo. Full recovery of AUVP is related to sufficient central vestibular compensation. It has been confirmed that the vestibular nucleus and vestibular cortex are involved in the process of vestibular compensatory in AUVP patients. However, few studies have focused on the functional compensation of thalamus in patients with AUVP. This study aimed to explore the alterations of resting-state functional connectivity (FC) focused on thalamus using functional magnetic resonance imaging (fMRI) in AUVP patients.
UNASSIGNED: Data of 3D-T1 and resting-state fMRI were collected from 40 AUVP patients and 35 healthy controls (HC). Seeds-based (bilateral thalamus) FC was analyzed to investigate the changes in FC between the two groups. Furthermore, we evaluated the associations between altered thalamus FC and clinical features in AUVP patients using Pearson\'s partial correlation.
UNASSIGNED: Compared with HC, AUVP patients showed decreased FC between bilateral thalamus and left insula. We also observed decreased FC between right thalamus and left supramarginal gyrus. Additionally, we found increased FC between left thalamus and right postcentral gyrus (PCG), as well as increased FC between right thalamus and regions of bilateral PCG, right middle frontal gyrus and right middle occipital gyrus in AUVP patients. Furthermore, the FC between left thalamus and left insula was negatively correlated with values of canal paresis in patients with AUVP (p = 0.010, r = -0.434).
UNASSIGNED: Our results provided first evidence for the decreased thalamo-vestibular cortex pathway, as well as increased thalamo-somatosensory and thalamo-visual cortex pathway in AUVP patients. These findings help us better understand the underlying mechanisms of central dynamic compensatory following an acute unilateral peripheral vestibular damage.

The pathogenesis of Alzheimer\'s disease (AD) remains unclear, but revealing individual differences in functional connectivity (FC) may provide insights and improve diagnostic precision. A hierarchical clustering-based autoencoder with functional connectivity was proposed to categorize 82 AD patients from the Alzheimer\'s Disease Neuroimaging Initiative. Compared to directly performing clustering, using an autoencoder to reduce the dimensionality of the matrix can effectively eliminate noise and redundant information in the data, extract key features, and optimize clustering performance. Subsequently, subtype differences in clinical and graph theoretical metrics were assessed. Results indicate a significant inter-subject heterogeneity in the degree of FC disruption among AD patients. We have identified two neurophysiological subtypes: subtype I exhibits widespread functional impairment across the entire brain, while subtype II shows mild impairment in the Limbic System region. What is worth noting is that we also observed significant differences between subtypes in terms of neurocognitive assessment scores associations with network functionality, and graph theory metrics. Our method can accurately identify different functional disruptions in subtypes of AD, facilitating personalized treatment and early diagnosis, ultimately improving patient outcomes.

BACKGROUND: Global brain connectivity (GBC) enables measuring brain regions\' functional connectivity strength at rest by computing the average correlation between each brain voxel\'s time-series and that of all other voxels.
METHODS: We used resting-state fMRI (rs-fMRI) data of young adult participants from the Human Connectome Project (HCP) dataset to explore the test-retest stability of GBC, the brain regions with higher or lower GBC, as well as the associations of this measure with age, sex, and fluid intelligence. GBC was computed by considering separately the positive and negative correlation coefficients (positive GBC and negative GBC).
RESULTS: Test-retest stability was higher for positive compared to negative GBC. Areas with higher GBC were located in the default mode network, insula, and visual areas, while regions with lower GBC were in subcortical regions, temporal cortex, and cerebellum. Higher age was related to global reduction of positive GBC. Males displayed higher positive GBC in the whole brain. Fluid intelligence was associated to increased positive GBC in fronto-parietal, occipital and temporal regions.
CONCLUSIONS: Compared to previous works, this study adopted a larger sample size and tested GBC stability using data from different rs-fMRI sessions. Moreover, these associations were examined by testing positive and negative GBC separately.
CONCLUSIONS: Lower stability for negative compared to positive GBC suggests that negative correlations may reflect less stable couplings between brain regions. Our findings indicate a greater importance of positive compared to negative GBC for the associations of functional connectivity strength with biological and neurocognitive variables.

Alzheimer\'s disease (AD) has a prolonged latent phase. Sensitive biomarkers of amyloid beta ( A β ), in the absence of clinical symptoms, offer opportunities for early detection and identification of patients at risk. Current A β biomarkers, such as CSF and PET biomarkers, are effective but face practical limitations due to high cost and limited availability. Recent blood plasma biomarkers, though accessible, still incur high costs and lack physiological significance in the Alzheimer\'s process. This study explores the potential of brain functional connectivity (FC) alterations associated with AD pathology as a non-invasive avenue for A β detection. While current stationary FC measurements lack sensitivity at the single-subject level, our investigation focuses on dynamic FC using resting-state functional MRI (rs-fMRI) and introduces the Generalized Auto-Regressive Conditional Heteroscedastic Dynamic Conditional Correlation (DCC-GARCH) model. Our findings demonstrate the superior sensitivity of DCC-GARCH to CSF A β status, and offer key insights into dynamic functional connectivity analysis in AD.