Resting state fMRI

Resting state fMRI (rs-fMRI or R-fMRI) is a method of functional magnetic resonance imaging (fMRI) that is used in brain mapping to evaluate regional interactions that occur in a resting or task-negative state, when an explicit task is not being performed. A number of resting-state brain networks have been identified, one of which is the default mode network. These brain networks are observed through changes in blood flow in the brain which creates what is referred to as a blood-oxygen-level dependent (BOLD) signal that can be measured using fMRI. Because brain activity is intrinsic, present even in the absence of an externally prompted task, any brain region will have spontaneous fluctuations in BOLD signal. The resting state approach is useful to explore the brain's functional organization and to examine if it is altered in neurological or mental disorders. Because of the resting state aspect of this imaging, data can be collected from a range of patient groups including people wit

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MICRO-513: Signal processing for functional brain imaging

Computational methods for the analysis of human brain imaging data

BIOENG-450: In silico neuroscience

"In silico Neuroscience" introduces students to a synthesis of modern neuroscience and state-of-the-art data management, modelling and computing technologies.

BIO-105: Cellular biology and biochemistry for engineers

Basic course in biochemistry as well as cellular and molecular biology for non-life science students enrolling at the Master or PhD thesis level from various engineering disciplines. It reviews essential notions necessary for a training in biology-related engineering fields.

On the Spatial Distribution of Temporal Complexity in Resting State and Task Functional MRI

Enrico Amico, Raphaël Pierre Liégeois, Amir Hossein Omidvarnia, Maria Giulia Preti, Dimitri Nestor Alice Van De Ville

Measuring the temporal complexity of functional MRI (fMRI) time series is one approach to assess how brain activity changes over time. In fact, hemodynamic response of the brain is known to exhibit critical behaviour at the edge between order and disorder. In this study, we aimed to revisit the spatial distribution of temporal complexity in resting state and task fMRI of 100 unrelated subjects from the Human Connectome Project (HCP). First, we compared two common choices of complexity measures, i.e., Hurst exponent and multiscale entropy, and observed a high spatial similarity between them. Second, we considered four tasks in the HCP dataset (Language, Motor, Social, and Working Memory) and found high task-specific complexity, even when the task design was regressed out. For the significance thresholding of brain complexity maps, we used a statistical framework based on graph signal processing that incorporates the structural connectome to develop the null distributions of fMRI complexity. The results suggest that the frontoparietal, dorsal attention, visual, and default mode networks represent stronger complex behaviour than the rest of the brain, irrespective of the task engagement. In sum, the findings support the hypothesis of fMRI temporal complexity as a marker of cognition.

MDPI2022

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Using connectivity-based real-time fMRI neurofeedback to modulate attentional and resting state networks in people with high trait anxiety

Elenor Morgenroth

High levels of trait anxiety are associated with impaired attentional control, changes in brain activity during attentional control tasks and altered network resting state functional connectivity (RSFC). Specifically, dorsolateral prefrontal cortex to anterior cingulate cortex (DLPFC - ACC) functional connectivity, thought to be crucial for effective and efficient attentional control, is reduced in high trait anxious individuals. The current study examined the potential of connectivity-based real-time functional magnetic imaging neurofeedback (rt-fMRI-nf) for enhancing DLPFC - ACC functional connectivity in trait anxious individuals. We specifically tested if changes in DLPFC - ACC connectivity were associated with reduced anxiety levels and improved attentional control. Thirty-two high trait anxious participants were assigned to either an experimental group (EG), undergoing veridical rt-fMRI-nf, or a control group (CG) that received sham (yoked) feedback. RSFC (using resting state fMRI), anxiety levels and Stroop task performance were assessed pre- and post-rt-fMRI-nf training. Post-rt-fMRI-nf training, relative to the CG, the EG showed reduced anxiety levels and increased DLPFC-ACC functional connectivity as well as increased RSFC in the posterior default mode network. Moreover, in the EG, changes in DLPFC - ACC functional connectivity during rt-fMRI-nf training were associated with reduced anxiety levels. However, there were no group differences in Stroop task performance. We conclude that rt-fMRI-nf targeting DLPFC - ACC functional connectivity can alter network connectivity and interactions and is a feasible method for reducing trait anxiety.

ELSEVIER SCI LTD2020

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PIRACY: An Optimized Pipeline for Functional Connectivity Analysis in the Rat Brain

Yujian Diao, Rolf Gruetter, Ileana Ozana Jelescu, Ting Yin

Resting state functional MRI (rs-fMRI) is a widespread and powerful tool for investigating functional connectivity (FC) and brain disorders. However, FC analysis can be seriously affected by random and structured noise from non-neural sources, such as physiology. Thus, it is essential to first reduce thermal noise and then correctly identify and remove non-neural artifacts from rs-fMRI signals through optimized data processing methods. However, existing tools that correct for these effects have been developed for human brain and are not readily transposable to rat data. Therefore, the aim of the present study was to establish a data processing pipeline that can robustly remove random and structured noise from rat rs-fMRI data. It includes a novel denoising approach based on the Marchenko-Pastur Principal Component Analysis (MP-PCA) method, FMRIB's ICA-based Xnoiseifier (FIX) for automatic artifact classification and cleaning, and global signal regression (GSR). Our results show that: (I) MP-PCA denoising substantially improves the temporal signal-to-noise ratio, (II) the pre-trained FIX classifier achieves a high accuracy in artifact classification, and (III) both independent component analysis (ICA) cleaning and GSR are essential steps in correcting for possible artifacts and minimizing the within-group variability in control animals while maintaining typical connectivity patterns. Reduced within-group variability also facilitates the exploration of potential between-group FC changes, as illustrated here in a rat model of sporadic Alzheimer's disease.

FRONTIERS MEDIA SA2021

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