A Bayesian optimization approach for rapidly mapping residual network function in stroke

Functional MRI for stereoscopic vision analysis: an experimental design

PURPOSE

The aim was to establish a functional MRI protocol for analyzing human stereoscopic vision in clinical practice. The feasibility was established in a cohort of 9 healthy subjects to determine the functional cortical areas responsible for virtually relief vision.

METHODS

Nine healthy right-handed subjects underwent orthoptic examination and functional MRI. The activation paradigms used were based on a block sequence with the projection of static and dynamic 2D and 3D test patterns during three experiments. The test patterns were projected through two separate eyepieces to create stereoscopic vision. SPM software was used for post-processing and data analysis.

RESULTS

Among the three different test patterns used, the second, which corresponded to a static high-relief image of a billiard, appeared to be significant for identifying cortical area activation during stereoscopy. In the group analysis, only areas V3A and V6 showed statistically significant activation. Individual analysis revealed activation of the rostral IPS and V5/MT+.

CONCLUSION

More data is needed to determine the precise cortical area of activation for stereoscopy. This study proposes a useful and accessible method for functional MRI analysis of stereoscopy.

Combining Real-Time Neuroimaging With Machine Learning to Study Attention to Familiar Faces During Infancy: A Proof of Principle Study

Looking at caregivers' faces is important for early social development, and there is a concomitant increase in neural correlates of attention to familiar versus novel faces in the first 6 months. However, by 12 months of age brain responses may not differentiate between familiar and unfamiliar faces. Traditional group-based analyses do not examine whether these 'null' findings stem from a true lack of preference within individual infants, or whether groups of infants show individually strong but heterogeneous preferences for familiar versus unfamiliar faces. In a preregistered proof-of-principle study, we applied Neuroadaptive Bayesian Optimisation (NBO) to test how individual infants' neural responses vary across faces differing in familiarity. Sixty-one 5-12-month-olds viewed faces resulting from gradually morphing a familiar (primary caregiver) into an unfamiliar face. Electroencephalography (EEG) data from fronto-central channels were analysed in real-time. After the presentation of each face, the Negative central (Nc) event-related potential (ERP) amplitude was calculated. A Bayesian Optimisation algorithm iteratively selected the next stimulus until it identified the stimulus eliciting the strongest Nc for that infant. Attrition (15%) was lower than in traditional studies (22%). Although there was no group-level Nc-difference between familiar versus unfamiliar faces, an optimum was predicted in 85% of the children, indicating individual-level attentional preferences. Traditional analyses based on infants' predicted optimum confirmed NBO can identify subgroups based on brain activation. Optima were not related to age and social behaviour. NBO suggests the lack of overall familiar/unfamiliar-face attentional preference in middle infancy is explained by heterogeneous preferences, rather than a lack of preference within individual infants.

Closed-loop fMRI at the mesoscopic scale of columns and layers: Can we do it and why would we want to?

Technological advances in fMRI including ultra-high magnetic fields (≥ 7 T) and acquisition methods that increase spatial specificity have paved the way for studies of the human cortex at the scale of layers and columns. This mesoscopic scale promises an improved mechanistic understanding of human cortical function so far only accessible to invasive animal neurophysiology. In recent years, an increasing number of studies have applied such methods to better understand the cortical function in perception and cognition. This future perspective article asks whether closed-loop fMRI studies could equally benefit from these methods to achieve layer and columnar specificity. We outline potential applications and discuss the conceptual and concrete challenges, including data acquisition and volitional control of mesoscopic brain activity. We anticipate an important role of fMRI with mesoscopic resolution for closed-loop fMRI and neurofeedback, yielding new insights into brain function and potentially clinical applications.This article is part of the theme issue 'Neurofeedback: new territories and neurocognitive mechanisms of endogenous neuromodulation'.

Dynamic layer-specific processing in the prefrontal cortex during working memory

The dorsolateral prefrontal cortex (dlPFC) is reliably engaged in working memory (WM) and comprises different cytoarchitectonic layers, yet their functional role in human WM is unclear. Here, participants completed a delayed-match-to-sample task while undergoing functional magnetic resonance imaging (fMRI) at ultra-high resolution. We examine layer-specific activity to manipulations in WM load and motor response. Superficial layers exhibit a preferential response to WM load during the delay and retrieval periods of a WM task, indicating a lamina-specific activation of the frontoparietal network. Multivariate patterns encoding WM load in the superficial layer dynamically change across the three periods of the task. Last, superficial and deep layers are non-differentially involved in the motor response, challenging earlier findings of a preferential deep layer activation. Taken together, our results provide new insights into the functional laminar circuitry of the dlPFC during WM and support a dynamic account of dlPFC coding.

Effects of transcranial direct current stimulation in children and young people with psychiatric disorders: a systematic review

Transcranial direct current stimulation (tDCS) has demonstrated benefits in adults with various psychiatric disorders, but its clinical utility in children and young people (CYP) remains unclear. This PRISMA systematic review used published and ongoing studies to examine the effects of tDCS on disorder-specific symptoms, mood and neurocognition in CYP with psychiatric disorders. We searched Medline via PubMed, Embase, PsychINFO via OVID, and Clinicaltrials.gov up to December 2022. Eligible studies involved multiple session (i.e., treatment) tDCS in CYP (≤ 25 years old) with psychiatric disorders. Two independent raters assessed the eligibility of studies and extracted data using a custom-built form. Of 33 eligible studies (participant N = 517), the majority (n = 27) reported an improvement in at least one outcome measure of disorder-specific symptoms. Few studies (n = 13) examined tDCS effects on mood and/or neurocognition, but findings were mainly positive. Overall, tDCS was well tolerated with minimal side effects. Of 11 eligible ongoing studies, many are sham-controlled RCTs (n = 9) with better blinding techniques and a larger estimated participant enrolment (M = 79.7; range 15-172) than published studies. Although encouraging, the evidence to date is insufficient to firmly conclude that tDCS can improve clinical symptoms, mood, or cognition in CYP with psychiatric disorders. Ongoing studies appear of improved methodological quality; however, future studies should broaden outcome measures to more comprehensively assess the effects of tDCS and develop dosage guidance (i.e., treatment regimens).

Neuroadaptive Bayesian optimisation to study individual differences in infants' engagement with social cues

Infants' motivation to engage with the social world depends on the interplay between individual brain's characteristics and previous exposure to social cues such as the parent's smile or eye contact. Different hypotheses about why specific combinations of emotional expressions and gaze direction engage children have been tested with group-level approaches rather than focusing on individual differences in the social brain development. Here, a novel Artificial Intelligence-enhanced brain-imaging approach, Neuroadaptive Bayesian Optimisation (NBO), was applied to infant electro-encephalography (EEG) to understand how selected neural signals encode social cues in individual infants. EEG data from 42 6- to 9-month-old infants looking at images of their parent's face were analysed in real-time and used by a Bayesian Optimisation algorithm to identify which combination of the parent's gaze/head direction and emotional expression produces the strongest brain activation in the child. This individualised approach supported the theory that the infant's brain is maximally engaged by communicative cues with a negative valence (angry faces with direct gaze). Infants attending preferentially to faces with direct gaze had increased positive affectivity and decreased negative affectivity. This work confirmed that infants' attentional preferences for social cues are heterogeneous and shows the NBO's potential to study diversity in neurodevelopmental trajectories.

EiDA: A lossless approach for dynamic functional connectivity; application to fMRI data of a model of ageing

Dynamic Functional Connectivity (dFC) is the study of the dynamic patterns of interaction that characterise brain function. Numerous numerical methods are available to compute and analyse dFC from high-dimensional data. In fMRI, a number of them rely on the computation of the instantaneous Phase Alignment (iPA) matrix (also known as instantaneous Phase Locking). Their limitations are the high computational cost and the concomitant need to introduce approximations with ensuing information loss. Here, we introduce the analytical decomposition of the iPA. This has two advantages. Firstly, we achieve an up to 1000-fold reduction in computing time without information loss. Secondly, we can formally introduce two alternative approaches to the analysis of the resulting time-varying instantaneous connectivity patterns, Discrete and Continuous EiDA (Eigenvector Dynamic Analysis), and a related set of metrics to quantify the total amount of instantaneous connectivity, drawn from dynamical systems and information theory. We applied EiDA to a dataset from 48 rats that underwent functional magnetic resonance imaging (fMRI) at four stages during a longitudinal study of ageing. Using EiDA, we found that the metrics we introduce provided robust markers of ageing with decreases in total connectivity and metastability, and an increase in informational complexity over the life span. This suggests that ageing reduces the available functional repertoire that is postulated to support cognitive functions and overt behaviours, slows down the exploration of this reduced repertoire, and decreases the coherence of its structure. In summary, EiDA is a method to extract lossless connectivity information that requires significantly less computational time, and provides robust and analytically principled metrics for brain dynamics. These metrics are interpretable and promising for studies on neurodevelopmental and neurodegenerative disorders.

Reproducibility in Neuroimaging Analysis: Challenges and Solutions

Recent years have marked a renaissance in efforts to increase research reproducibility in psychology, neuroscience, and related fields. Reproducibility is the cornerstone of a solid foundation of fundamental research-one that will support new theories built on valid findings and technological innovation that works. The increased focus on reproducibility has made the barriers to it increasingly apparent, along with the development of new tools and practices to overcome these barriers. Here, we review challenges, solutions, and emerging best practices with a particular emphasis on neuroimaging studies. We distinguish 3 main types of reproducibility, discussing each in turn. Analytical reproducibility is the ability to reproduce findings using the same data and methods. Replicability is the ability to find an effect in new datasets, using the same or similar methods. Finally, robustness to analytical variability refers to the ability to identify a finding consistently across variation in methods. The incorporation of these tools and practices will result in more reproducible, replicable, and robust psychological and brain research and a stronger scientific foundation across fields of inquiry.

Structural disconnectome mapping of cognitive function in poststroke patients

BACKGROUND AND PURPOSE

Sequalae following stroke represents a significant challenge in current rehabilitation. The location and size of focal lesions are only moderately predictive of the diverse cognitive outcome after stroke. One explanation building on recent work on brain networks proposes that the cognitive consequences of focal lesions are caused by damages to anatomically distributed brain networks supporting cognition rather than specific lesion locations.

METHODS

To investigate the association between poststroke structural disconnectivity and cognitive performance, we estimated individual level whole-brain disconnectivity probability maps based on lesion maps from 102 stroke patients using normative data from healthy controls. Cognitive performance was assessed in the whole sample using Montreal Cognitive Assessment, and a more comprehensive computerized test protocol was performed on a subset (n = 82).

RESULTS

Multivariate analysis using Partial Least Squares on the disconnectome maps revealed that higher disconnectivity in right insular and frontal operculum, superior temporal gyrus and putamen was associated with poorer MoCA performance, indicating that lesions in regions connected with these brain regions are more likely to cause cognitive impairment. Furthermore, our results indicated that disconnectivity within these clusters was associated with poorer performance across multiple cognitive domains.

CONCLUSIONS

These findings demonstrate that the extent and distribution of structural disconnectivity following stroke are sensitive to cognitive deficits and may provide important clinical information predicting poststroke cognitive sequalae.

Bayesian optimisation for efficient parameter inference in a cardiac mechanics model of the left ventricle

We consider parameter inference in cardio-mechanic models of the left ventricle, in particular the one based on the Holtzapfel-Ogden (HO) constitutive law, using clinical in vivo data. The equations underlying these models do not admit closed form solutions and hence need to be solved numerically. These numerical procedures are computationally expensive making computational run times associated with numerical optimisation or sampling excessive for the uptake of the models in the clinical practice. To address this issue, we adopt the framework of Bayesian optimisation (BO), which is an efficient statistical technique of global optimisation. BO seeks the optimum of an unknown black-box function by sequentially training a statistical surrogate-model and using it to select the next query point by leveraging the associated exploration-exploitation trade-off. To guarantee that the estimates based on the in vivo data are realistic also for high-pressures, unobservable in vivo, we include a penalty term based on a previously published empirical law developed using ex vivo data. Two case studies based on real data demonstrate that the proposed BO procedure outperforms the state-of-the-art inference algorithm for the HO constitutive law.

Handling EEG artifacts and searching individually optimal experimental parameter in real time: a system development and demonstration

Objective.Neuroadaptive paradigms that systematically assess event-related potential (ERP) features across many different experimental parameters have the potential to improve the generalizability of ERP findings and may help to accelerate ERP-based biomarker discovery by identifying the exact experimental conditions for which ERPs differ most for a certain clinical population. Obtaining robust and reliable ERPs online is a prerequisite for ERP-based neuroadaptive research. One of the key steps involved is to correctly isolate electroencephalography artifacts in real time because they contribute a large amount of variance that, if not removed, will greatly distort the ERP obtained. Another key factor of concern is the computational cost of the online artifact handling method. This work aims to develop and validate a cost-efficient system to support ERP-based neuroadaptive research.Approach.We developed a simple online artifact handling method, single trial PCA-based artifact removal (SPA), based on variance distribution dichotomies to distinguish between artifacts and neural activity. We then applied this method in an ERP-based neuroadaptive paradigm in which Bayesian optimization was used to search individually optimal inter-stimulus-interval (ISI) that generates ERP with the highest signal-to-noise ratio.Main results.SPA was compared to other offline and online algorithms. The results showed that SPA exhibited good performance in both computational efficiency and preservation of ERP pattern. Based on SPA, the Bayesian optimization procedure was able to quickly find individually optimal ISI.Significance.The current work presents a simple yet highly cost-efficient method that has been validated in its ability to extract ERP, preserve ERP effects, and better support ERP-based neuroadaptive paradigm.

State-dependent signatures of anti-N-methyl-d-aspartate receptor encephalitis

Traditional static functional connectivity analyses have shown distinct functional network alterations in patients with anti-N-methyl-d-aspartate receptor encephalitis. Here, we use a dynamic functional connectivity approach that increases the temporal resolution of connectivity analyses from minutes to seconds. We hereby explore the spatiotemporal variability of large-scale brain network activity in anti-N-methyl-d-aspartate receptor encephalitis and assess the discriminatory power of functional brain states in a supervised classification approach. We included resting-state functional magnetic resonance imaging data from 57 patients and 61 controls to extract four discrete connectivity states and assess state-wise group differences in functional connectivity, dwell time, transition frequency, fraction time and occurrence rate. Additionally, for each state, logistic regression models with embedded feature selection were trained to predict group status in a leave-one-out cross-validation scheme. Compared to controls, patients exhibited diverging dynamic functional connectivity patterns in three out of four states mainly encompassing the default-mode network and frontal areas. This was accompanied by a characteristic shift in the dwell time pattern and higher volatility of state transitions in patients. Moreover, dynamic functional connectivity measures were associated with disease severity and positive and negative schizophrenia-like symptoms. Predictive power was highest in dynamic functional connectivity models and outperformed static analyses, reaching up to 78.6% classification accuracy. By applying time-resolved analyses, we disentangle state-specific functional connectivity impairments and characteristic changes in temporal dynamics not detected in static analyses, offering new perspectives on the functional reorganization underlying anti-N-methyl-d-aspartate receptor encephalitis. Finally, the correlation of dynamic functional connectivity measures with disease symptoms and severity demonstrates a clinical relevance of spatiotemporal connectivity dynamics in anti-N-methyl-d-aspartate receptor encephalitis.