Biology subjects

Vizioli, L.

Publications and source records attributed to Vizioli, L..

At least 19 recordsLinked to original sources

bioRxiv2026

An 80-channel receive array for 10.5T neuroimaging: Key considerations for SNR optimization

PurposeHigh-density RF receive arrays are required to realize the inherently available SNR and parallel imaging advantages at ultrahigh field strengths, which are essential for high-resolution functional and anatomical brain MRI. This study aims to systematically assess the impacts of often-overlooked parasitic losses associated with various RF coil components, as these losses can degrade the realized SNR and cause significant deviation from the ultimate intrinsic SNR (uiSNR; the theoretical upper bound of available SNR). In addition, we seek to detail engineering solutions to each of these loss mechanisms in pursuit of achieving a higher fraction of the uiSNR limit. MethodsA 16-channel loop-folded dipole transceiver array was developed for 10.5T human head applications and paired with a fully-updated 64-channel receive-only loop array. The optimization of the receive array considered several factors, including (but not limited to) coil dimensions to accommodate a larger population, the size and number of loops to enhance SNR and parallel imaging performance, and circuit design strategies to minimize parasitic losses. The SNR and parallel imaging performance of the receive array were quantitatively assessed by comparison with the uiSNR, as well as existing high-channel-count receive arrays at 7T and 10.5T. Finally, the complete 16-channel transmit, 80-channel receive coil array was safety validated for human use and employed for high-resolution functional and anatomical MRI at 10.5T. ResultsInitial results show that the 80-channel array, featuring larger loops in an overlapped layout with optimized circuitry, significantly improves the SNR and approaches the uiSNR limit in a large fraction of the head, while maintaining or enhancing the parallel imaging performance compared to previously used non-overlap layout. ConclusionThis study suggests that, although the traditionally used high-channel-count loop receive array technology can approach the uiSNR limit in the >10T regime, meticulous design optimization--including systematic assessment and minimization of parasitic losses--has become increasingly critical for achieving this goal in this new field-strength territory.

neuroscience↗

bioRxiv2026

Functional MRI of the Human Hippocampus at 10.5T: Pushing the Boundaries of Spatial Resolution

Although the hippocampus is central to human cognition, its deep location within the medial temporal lobe has historically limited fMRI signal quality. Here, we leverage an ultrahigh-field 10.5T fMRI system, which provides inherently higher signal-to-noise ratio than commonly used lower-field systems, to overcome these limitations and achieve unprecedented 0.5 mm isotropic resolution. This advancement allows for comprehensive hippocampal coverage with robust image quality, facilitating the study of functional microcircuits in individual subjects and paving the way for high-precision clinical diagnostics.

neuroscience↗

bioRxiv2026

Bridging the gap with invasive imaging: promises and challenges of a new generation of ultrahigh resolution fMRI

The human neocortex is organized into six laminae forming the structural basis for feedforward and feedback connections across the brain, yet their functional contributions have remained largely inaccessible for non-invasive imaging methods. Leveraging the ultrahigh field of a 10.5 Tesla scanner, we acquired anatomical and functional MRI data at 0.37mm ([~]0.05 {micro}L) and 0.35mm ([~]0.04 {micro}L) isotropic resolution, respectively, approaching the scale of individual cortical layers in humans. Using the Stria of Gennari as an in-vivo anatomical landmark, we extend our previous finding that feedforward visual activation in layer IV of the primary visual cortex during visual stimulation was resolved in laminar BOLD profiles. These laminar features were reproducible across sessions and were not clearly visible with more typical 0.8 mm resolutions at 7T, underscoring the benefits of further increases in magnetic field strength and resolution. This imaging domain, however, comes with increasing challenges of distortion, alignment, and cortical depth estimation, which must be addressed and mitigated to realize its benefits. In this paper we discuss the promises and challenges of this new regime of high resolutions. Our findings showcase the potential of ultrahigh field, ultrahigh resolution human fMRI to bridge the gap with invasive imaging of cortical layers.

neuroscience↗

bioRxiv2025

A Numerical Alternative to MR Thermometry for Safety Validation of Multi-Channel RF Transmit Coils

PurposeThis study proposes an alternative approach to MR thermometry (MRT) for the safety validation of multi-channel RF transmit coils and demonstrates its use to enable human studies at 10.5T. MethodsTo ensure patient safety, specific absorption rate (SAR) limits established under international guidelines must not be exceeded. Predicting SAR on state-of-the-art parallel transmit systems relies on electromagnetic simulations, which require extensive experimental validation. Despite a well-established validation workflow, SAR prediction errors are unavoidable and must be quantified as a safety margin. While MRT tests are commonly used for this purpose, their technical challenges necessitate an alternative. The proposed technique propagates the error between experimentally and numerically acquired B+distributions to the uncertainty in simulated peak local SAR using Monte-Carlo simulations without the need for MRT. This method was validated using a 16-channel transceiver coil for imaging the human torso (henceforth referred to as a "body" coil) at 10.5T with two excitation scenarios, as well as an 8-channel 10.5T head coil with four excitation scenarios. ResultsThe proposed numerical technique proved more conservative than existing MRT-based SAR error quantification methods across all tested scenarios. Its application to validate three state-of-the-art head coils (16Tx/32Rx, 16Tx/80Rx, and 16Tx/128Rx) led to regulatory approval for human head imaging and high-quality functional as well as diffusion MRI results at 10.5T. ConclusionA numerical alternative to MRT requires only the experimental acquisition of B+ maps for comparison with simulations, enabling the quantification of uncertainty in SAR prediction. This technique was applied to three 16-channel transmit arrays, each used in conjunction with high-channel-count receive arrays for in vivo imaging.

neuroscience↗

bioRxiv2025

fMRIPrep Lifespan: Extending A Robust Pipeline for Functional MRI Preprocessing to Developmental Neuroimaging

The adoption of a standardized preprocessing workflow is vital for fostering community, sharing, and reproducibility. fMRIPrep has been a critical advancement towards this end, however, it is limited in its capacity to be applied to data across the lifespan, starting from infancy. Here, we introduce fMRIPrep Lifespan, an extension of fMRIPrep that extends the standardized processing from childhood to senescence to include neonatal, infant, and toddler structural and functional MRI data preprocessing. This effort involves a NiPreps integration of 1) a workflow akin to fMRIPrep optimized for MRI data in the first years of life (previously NiBabies) and 2) upstream enhancements to the entire NiPreps suite, including multi-echo data processing, modularization of workflow components, and convergence of processing with other popular workflows (ABCD-BIDS, Human Connectome Project Pipelines). Using data from the Baby Connectome Project (participants 1-43 months of age), we demonstrate that fMRIPrep Lifespan produces high-quality outputs across a wide age range. Moving forward, the scalable, modular infrastructure of fMRIPrep Lifespan will ensure adaptability to data from birth to old age while maintaining robust and reproducible frameworks for functional MRI research across the lifespan.

bioinformatics↗

bioRxiv2025

Predictive acoustical processing in human cortical layers

In our dynamic environments, predictive processing is vital for auditory perception and its associated behaviors. Predictive coding formalizes inferential processes by implementing them as information exchange across cortical layers and areas. With laminar-specific blood oxygenation level dependent we measured responses to a cascading oddball paradigm, to ground predictive auditory processes on the mesoscopic human cortical architecture. We show that the violation of predictions are potentially hierarchically organized and associated with responses in superficial layers of the planum polare and middle layers of the lateral temporal cortex. Moreover, we relate the updating of the brains internal model to changes in deep layers. Using a modeling approach, we derive putative changes in neural dynamics while accounting for draining effects. Our results support the role of temporal cortical architecture in the implementation of predictive coding and highlight the ability of laminar fMRI to investigate mesoscopic processes in a large extent of temporal areas.

neuroscience↗

bioRxiv2024

Spanning spatial scales with functional imaging in the human brain; initial experiences at 10.5 Tesla

One of the most important frontiers in the efforts to improve functional imaging of brain activity (fMRI) is the recent push to increase the magnetic fields for human imaging beyond 10 Tesla. Having established safety, large gains in signal-to-noise-ratio (SNR), and novel radiofrequency arrays that capture the higher SNR, here we demonstrate major gains in the spatial resolution, sensitivity, and functional contrast of BOLD (Blood Oxygenation Level Dependent) based human fMRI at 10.5 Tesla. Using image reconstruction methods developed to minimize blurring, we also demonstrate that ultrahigh resolutions achieved at 10.5 Tesla suppress large-vein confounds in gradient-recalled-echo BOLD fMRI, thus improving the fidelity of functional signals relative to neuronal activity and yielding accurate cortical depth-profiles for layer-specific activation. Together, these multiplicative benefits deliver much needed increases in precision and resolution for meso-scale fMRI applications and illustrate the transformative potential of human functional imaging at magnetic fields that exceed 10 Tesla.

neuroscience↗

bioRxiv2024

A 128-channel receive array with enhanced SNR performance for 10.5 tesla brain imaging

PurposeTo develop and characterize the performance of a 128-channel head array for brain imaging at 10.5 tesla and evaluate the potential of brain imaging at this unique, >10 tesla magnetic field. MethodsThe coil is composed of a 16-channel self-decoupled loop transmit/receive array with a 112-loop receive-only (Rx) insert. Interactions between the outer transmitter and the inner 112Rx insert were mitigated using coaxial cable traps placed every 1/16 of a wavelength on each feed cable, locating most preamplifier boards outside the transmitter field and miniaturizing those placed directly on individual coils. ResultsThe 128-channel array described herein achieved 77% of ultimate intrinsic SNR in the center of the brain. Transmit field maps obtained experimentally on a phantom with and without the receive array were similar and matched EM simulations, leading to FDA approval for human imaging. Anatomical and functional data, including with power demanding sequences, were acquired successfully on human volunteers. ConclusionsCounterintuitive to expectations based on magnetic fields [≤]7T, the higher channel counts provided SNR gains centrally, capturing [~]80% uiSNR. Fraction of uiSNR achieved centrally in 64Rx, 80Rx, and 128Rx arrays suggested that a plateau was being reached at 80%. At this plateau, linear to approximately quadratic B0 dependent SNR gains for the periphery and the center, respectively, were observed for 10.5T relative 7T.

neuroscience↗

bioRxiv2024

RF coil design strategies for improving SNR at theultrahigh magnetic field of 10.5 Tesla

PurposeTo develop multichannel transmit and receive arrays towards capturing the ultimate-intrinsic-SNR (uiSNR) at 10.5 Tesla (T) and to demonstrate the feasibility and potential of whole-brain, high-resolution human brain imaging at this high field strength. MethodsA dual row 16-channel self-decoupled transmit (Tx) array was converted to a 16Tx/Rx transceiver using custom transmit/receive switches. A 64-channel receive-only (64Rx) array was built to fit into the 16Tx/Rx array. Electromagnetic modeling and experiments were employed to define safe operation limits of the resulting 16Tx/80Rx array and obtain FDA approval for human use. ResultsThe 64Rx array alone captured approximately 50% of the central uiSNR at 10.5T while the identical 7T 64Rx array captured [~]76% of uiSNR at this lower field strength. The 16Tx/80Rx configuration brought the fraction of uiSNR captured at 10.5T to levels comparable to the performance of the 64Rx array at 7T. SNR data obtained at the two field strengths with these arrays displayed [Formula] dependent increases over a large central region. Whole-brain high resolution T2* and T1 weighted anatomical and gradient-recalled echo EPI BOLD fMRI images were obtained at 10.5T for the first time with such an advanced array, illustrating the promise of >10T fields in studying the human brain. ConclusionWe demonstrated the ability to approach the uiSNR at 10.5T over the human brain with a novel, high channel count array, achieving large SNR gains over 7T, currently the most commonly employed ultrahigh field platform, and demonstrate high resolution and high contrast anatomical and functional imaging at 10.5T.

neuroscience↗

bioRxiv2024

Evaluating the effect of denoising submillimeter auditory fMRI data with NORDIC

Functional magnetic resonance imaging (fMRI) has emerged as an essential tool for exploring human brain function. Submillimeter fMRI, in particular, has emerged as a tool to study mesoscopic computations. The inherently low signal-to-noise ratio (SNR) at submillimeter resolutions warrants the use of denoising approaches tailored at reducing thermal noise - the dominant contributing noise component in high resolution fMRI. NORDIC PCA is one of such approaches, and has been benchmarked against other approaches in several applications. Here, we investigate the effects that two versions of NORDIC denoising have on auditory submillimeter data. As investigating auditory functional responses poses unique challenges, we anticipated that the benefit of this technique would be especially pronounced. Our results show that NORDIC denoising improves the detection sensitivity and the reliability of estimates in submillimeter auditory fMRI data. These effects can be explained by the reduction of the noise-induced signal variability. However, we also observed a reduction in the average response amplitude (percent signal), which may suggest that a small amount of signal was also removed. We conclude that, while evaluating the effects of the signal reduction induced by NORDIC may be necessary for each application, using NORDIC in high resolution auditory fMRI studies may be advantageous because of the large reduction in variability of the estimated responses.

neuroscience↗

bioRxiv2023

Framewise multi-echo distortion correction for superior functional MRI

Functional MRI (fMRI) data are severely distorted by magnetic field (B0) inhomogeneities which currently must be corrected using separately acquired field map data. However, changes in the head position of a scanning participant across fMRI frames can cause changes in the B0 field, preventing accurate correction of geometric distortions. Additionally, field maps can be corrupted by movement during their acquisition, preventing distortion correction altogether. In this study, we use phase information from multi-echo (ME) fMRI data to dynamically sample distortion due to fluctuating B0 field inhomogeneity across frames by acquiring multiple echoes during a single EPI readout. Our distortion correction approach, MEDIC (Multi-Echo DIstortion Correction), accurately estimates B0 related distortions for each frame of multi-echo fMRI data. Here, we demonstrate that MEDICs framewise distortion correction produces improved alignment to anatomy and decreases the impact of head motion on resting-state functional connectivity (RSFC) maps, in higher motion data, when compared to the prior gold standard approach (i.e., TOPUP). Enhanced framewise distortion correction with MEDIC, without the requirement for field map collection, furthers the advantage of multi-echo over single-echo fMRI.

bioengineering↗

bioRxiv2023

Multi-echo Acquisition and Thermal Denoising Advances Infant Precision Functional Imaging

The characterization of individual functional brain organization with Precision Functional Mapping has provided important insights in recent years in adults. However, little is known about the ontogeny of inter-individual differences in brain functional organization during human development. Precise characterization of systems organization during periods of high plasticity is likely to be essential for discoveries promoting lifelong health. Obtaining precision fMRI data during development has unique challenges that highlight the importance of establishing new methods to improve data acquisition, processing, and analysis. Here, we investigate two methods that can facilitate attaining this goal: multi-echo (ME) data acquisition and thermal noise removal with Noise Reduction with Distribution Corrected (NORDIC) principal component analysis. We applied these methods to precision fMRI data from adults, children, and newborn infants. In adults, both ME acquisitions and NORDIC increased temporal signal to noise ratio (tSNR) as well as the split-half reliability of functional connectivity matrices, with the combination helping more than either technique alone. The benefits of NORDIC denoising replicated in both our developmental samples. ME acquisitions revealed longer and more variable T2* relaxation times across the brain in infants relative to older children and adults, leading to major differences in the echo weighting for optimally combining ME data. This result suggests ME acquisitions may be a promising tool for optimizing developmental fMRI, albeit application in infants needs further investigation. The present work showcases methodological advances that improve Precision Functional Mapping in adults and developmental populations and, at the same time, highlights the need for further improvements in infant specific fMRI.

neuroscience↗

bioRxiv2022

Task Demands Differentiate Regional Depth-Dependent Activity Profiles Within the Ventral Visual Pathway

FMRI has become a key tool for human neuroscience. At ultra-high field (=> 7 Tesla) it is possible to acquire images with submillimeter spatial precision, which allows examinations of mesoscale functional organization. Studying the brain at this scale does not come without its challenges, however. To tackle some of these challenges, we propose an approach that builds upon task modulations to identical visual stimuli and the simultaneous imaging of distal areas of varying complexity across the cortical hierarchy. Specifically, we record BOLD responses elicited by face stimuli during a stimulus relevant and a stimulus irrelevant task across cortical depths in V1, Occipital Face (OFA) and Fusiform Face area (FFA). We observed that task-related top-down modulations were larger in the inner compared to the outer layers of V1; and in the outer compared to the inner layers in the FFA. Our findings are consistent with animal reports of feedback exchange between deeper and superficial layers and with the notion of apical dendritic amplification as a key mechanism of conscious perception. Our approach showcases the potential of "laminar-fMRI" to explore large scale network activity and represents a promising step towards characterizing laminar functional profiles in humans for complex, cognitively meaningful, and socially relevant stimuli such as faces.

neuroscience↗

bioRxiv2021

Improving Sensitivity to Functional Responses without a Loss of Spatiotemporal Precision in Human Brain Imaging

As the neuroimaging field moves towards detecting smaller effects at higher spatial resolutions, and faster sampling rates, there is increased attention given to the deleterious contribution of unstructured, thermal noise. Here, we critically evaluate the performance of a recently developed reconstruction method, termed NORDIC, for suppressing thermal noise using datasets acquired with various field strengths, voxel sizes, sampling rates, and task designs. Following minimal preprocessing, statistical activation (t-values) of NORDIC processed data was compared to the results obtained with alternative denoising methods. Additionally, we examined the consistency of the estimates of task responses at the single-voxel, single run level, using a finite impulse response (FIR) model. To examine the potential impact on effective image resolution, the overall smoothness of the data processed with different methods was estimated. Finally, to determine if NORDIC alters or removes important temporal information, we employed an exhaustive leave-p-out cross validation approach, using FIR task responses to predict held out timeseries, quantified using R2. After NORDIC, the t-values are increased, an improvement comparable to what could be achieved by 1.5 voxels smoothing, and task events are clearly visible and have less cross-run error. These advantages are achieved in the absence of large changes in estimates of spatial smoothness. Cross-validated R2s based on the FIR models show that NORDIC is not measurably distorting the temporal structure of the data and is the best predictor of non-denoised time courses. The results demonstrate that analyzing 1 run of data after NORDIC produces results equivalent to using 2 to 3 original runs and that NORDIC performs equally well across a diverse array of functional imaging protocols. Significance StatementFor functional neuroimaging, the increasing availability of higher field strengths and ever higher spatiotemporal resolutions has led to concomitant increase in concerns about the deleterious effects of thermal noise. Historically this noise source was suppressed using methods that reduce spatial precision such as image blurring or averaging over a large number of trials or sessions, which necessitates large data collection efforts. Here, we critically evaluate the performance of a recently developed reconstruction method, termed NORDIC. Across datasets varying in field strength, voxel sizes, sampling rates, and task designs, NORDIC produces substantial gains in data quality. Both conventional t-statistics derived from general linear models and coefficients of determination for predicting unseen data are improved, while avoiding meaningful increases in typical estimates of image smoothness or substantial losses of temporal information.

neuroscience↗

bioRxiv2021

Statistical Power or More Precise Insights into Neuro-Temporal Dynamics? Assessing the Benefits of Rapid Temporal Sampling in fMRI

Functional magnetic resonance imaging (fMRI), a non-invasive and widely used human neuroimaging method, is most known for its spatial precision. However, there is a growing interest in its temporal sensitivity. This is despite the temporal blurring of neuronal events by the blood oxygen level dependent (BOLD) signal, the peak of which lags neuronal firing by 4 to 6 seconds. Given this, the goal of this review is to answer a seemingly simple question - "What are the benefits of increased temporal sampling for fMRI?". To answer this, we have combined fMRI data collected at multiple temporal scales, from 323 to 1000 milliseconds, with a review of both historical and contemporary temporal literature. After a brief discussion of technological developments that have rekindled interest in temporal research, we next consider the potential statistical and methodological benefits. Most importantly, we explore how fast fMRI can uncover previously unobserved neuro-temporal dynamics - effects that are entirely missed when sampling at conventional 1 to 2 second rates. With the intrinsic link between space and time in fMRI, this temporal renaissance also delivers improvements in spatial precision. Far from producing only statistical gains, the array of benefits suggest that the continued temporal work is worth the effort.

neuroscience↗

bioRxiv2020

A Paradigm Change in Functional Brain Mapping: Suppressing the Thermal Noise in fMRI

Functional magnetic resonance imaging (fMRI) has become one of the most powerful tools for investigating the human brain. However, virtually all fMRI studies have relatively poor signal-to-noise ratio (SNR). Here we introduce a novel fMRI denoising technique, which suppresses noise that is indistinguishable from zero-mean, Gaussian-distributed noise. Thermal noise, falling in this category, is a major source of noise in fMRI, particularly, but not exclusively, at high spatial and/or temporal resolutions. Using 7-Tesla high-resolution data, we demonstrate improvements in temporal-SNR, the detection of stimulus-induced signal changes, and functional maps, while leaving stimulus-induced signal change amplitudes, image spatial precision, and functional point-spread-function unaltered. We also show that the method is equally applicable when using supra-millimeter resolution 3- and 7-Tesla fMRI data, different cortical regions, stimulation/task paradigms, and acquisition strategies. This denoising approach improves key metrics of functional activation detection while preserving spatial precision.

neuroscience↗

bioRxiv2020

Domain-Specific Tasks Differentiate Cortical Areas with Similar Sensory Responses

The brain is organized into distinct, flexible networks. Within these networks, cognitive variables such as attention can modulate sensory representations in accordance with moment-to-moment behavioral requirements. These modulations can be studied by varying task demands; however, the tasks employed are often incongruent with the postulated functions of a sensory system, limiting the characterization of the system in relation to natural behaviors. Here we combine domain-specific task manipulations and ultra-high field fMRI to study the nature of top-down modulations. We exploited faces, a visual category underpinned by a complex cortical network, and instructed participants to perform either a stimulus-relevant/domain-specific or a stimulus-irrelevant task in the scanner. We found that 1. perceptual ambiguity (i.e. difficulty of achieving a stable percept) is encoded in top-down modulations from higher-level cortices; 2. the right inferior-temporal lobe is active under challenging conditions and uniquely encodes trial-by-trial variability in face perception.

neuroscience↗

bioRxiv2019

Multivoxel Pattern of Blood Oxygen Level Dependent Activity can be sensitive to stimulus specific fine scale responses

1.At ultra-high field, fMRI voxels can span the sub-millimeter range, allowing the recording of blood oxygenation level dependent (BOLD) responses at the level of fundamental units of neural computation, such as cortical columns and layers. This sub-millimeter resolution, however, is only nominal in nature as a number of factors limit the spatial acuity of functional voxels. Multivoxel Pattern Analysis (MVPA) may provide a means to detect information at finer spatial scales that may otherwise not be visible at the single voxel level due to limitations in sensitivity and specificity. Here, we evaluate the spatial scale of stimuli specific BOLD responses in multivoxel patterns exploited by linear Support Vector Machine, Linear Discriminant Analysis and Naive Bayesian classifiers across cortical depths in V1. To this end, we artificially misaligned the testing relative to the training portion of the data in increasing spatial steps, then investigated the breakdown of the classifiers performances. A one voxel shift led to a significant decrease in decoding accuracy (p<.05) across all cortical depths, indicating that stimulus specific responses in a multivoxel pattern of BOLD activity exploited by multivariate decoders can be as precise as the nominal resolution of single voxels (here .8 mm isotropic). Our results further indicate that large draining vessels, prominently residing in proximity of the pial surface, do not, in this case, hinder the ability of MVPA to exploit fine scale patterns of BOLD signals. We argue that tailored analytical approaches can help overcoming limitations in high-resolution fMRI and permit studying the mesoscale organization of the human brain with higher sensitivities.

neuroscience↗