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Daniel K. Sodickson

Publications and source records attributed to Daniel K. Sodickson.

18 recordsLinked to original sources

L-TGVN: Leveraging Longitudinal Priors for Personalized Rapid MRI

MRI provides excellent soft-tissue contrast without ionizing radiation, but long acquisition times increase patient discomfort while also raising exam costs and limiting scanner throughput. A common approach to reduce scan time is to acquire fewer measurements, which yields an ill-posed linear inverse problem; recovering diagnostic-quality images therefore requires incorporating prior knowledge beyond the measured data. In follow-up exams, the most recent prior scan of a patient can provide a highly informative subject-specific context, but practical use is complicated by temporal changes (including pathology progression), misalignment between scans, and protocol drift across acquisitions. In this work, we introduce L-TGVN, a Longitudinal Trust-Guided Variational Network that leverages prior scans as side information to reconstruct the current scan from heavily undersampled measurements. Crucially, L-TGVN constrains the influence of prior scans to be consistent with the acquired measurements. Unlike many existing longitudinal reconstruction methods, it does not require explicit pre-registration between prior and current scans. It further accommodates differences in acquisition protocols across visits (e.g., changes in sequence parameters). We evaluate L-TGVN against matched-capacity baselines, including prior-guided methods and methods that do not use longitudinal priors, and observe consistent improvements in standard quantitative metrics together with better preservation of fine structures at challenging accelerations. Source code is available at github.com/sodicksonlab/L-TGVN.

eess.IV

PSIRNet: Deep Learning-based Free-breathing Rapid Acquisition Late Enhancement Imaging

Purpose: To develop and evaluate a deep learning (DL) method for free-breathing phase-sensitive inversion recovery (PSIR) late gadolinium enhancement (LGE) cardiac MRI that produces diagnostic-quality images from a single acquisition over two heartbeats, eliminating the need for 8 to 24 motion-corrected (MOCO) signal averages. Materials and Methods: Raw data comprising 800,653 slices from 55,917 patients, acquired on 1.5T and 3T scanners across multiple sites from 2016 to 2024, were used in this retrospective study. Data were split by patient: 640,000 slices (42,822 patients) for training and the remainder for validation and testing, without overlap. The training and testing data were from different institutions. PSIRNet, a physics-guided DL network with 845 million parameters, was trained end-to-end to reconstruct PSIR images with surface coil correction from a single interleaved IR/PD acquisition over two heartbeats. Reconstruction quality was evaluated using SSIM, PSNR, and NRMSE against MOCO PSIR references. Two expert cardiologists performed an independent qualitative assessment, scoring image quality on a 5-point Likert scale across bright blood, dark blood, and wideband LGE variants. Paired superiority and equivalence (margin = 0.25 Likert points) were tested using exact Wilcoxon signed-rank tests at a significance level of 0.05 using R version 4.5.2. Results: Both readers rated single-average PSIRNet reconstructions superior to MOCO PSIR for dark blood LGE (conservative P = .002); for bright blood and wideband, one reader rated it superior and the other confirmed equivalence (all P < .001). Inference required approximately 100 msec per slice versus more than 5 sec for MOCO PSIR. Conclusion: PSIRNet produces diagnostic-quality free-breathing PSIR LGE images from a single acquisition, enabling 8- to 24-fold reduction in acquisition time.

eess.IV

Multisession Longitudinal Dynamic MRI Incorporating Patient-Specific Prior Image Information Across Time

Serial Magnetic Resonance Imaging (MRI) exams are often performed in clinical practice, offering shared anatomical and motion information across imaging sessions. However, existing reconstruction methods process each session independently without leveraging this valuable longitudinal information. In this work, we propose a novel concept of longitudinal dynamic MRI, which incorporates patient-specific prior images to exploit temporal correlations across sessions. This framework enables progressive acceleration of data acquisition and reduction of scan time as more imaging sessions become available. The concept is demonstrated using the 4D Golden-angle RAdial Sparse Parallel (GRASP) MRI, a state-of-the-art dynamic imaging technique. Longitudinal reconstruction is performed by concatenating multi-session time-resolved 4D GRASP datasets into an extended dynamic series, followed by a low-rank subspace-based reconstruction algorithm. A series of experiments were conducted to evaluate the feasibility and performance of the proposed method. Results show that longitudinal 4D GRASP reconstruction consistently outperforms standard single-session reconstruction in image quality, while preserving inter-session variations. The approach demonstrated robustness to changes in anatomy, imaging intervals, and body contour, highlighting its potential for improving imaging efficiency and consistency in longitudinal MRI applications. More generally, this work suggests a new context-aware imaging paradigm in which the more we see a patient, the faster we can image.

eess.IV

A Trust-Guided Approach to MR Image Reconstruction with Side Information

Reducing MRI scan times can improve patient care and lower healthcare costs. Many acceleration methods are designed to reconstruct diagnostic-quality images from sparse k-space data, via an ill-posed or ill-conditioned linear inverse problem (LIP). To address the resulting ambiguities, it is crucial to incorporate prior knowledge into the optimization problem, e.g., in the form of regularization. Another form of prior knowledge less commonly used in medical imaging is the readily available auxiliary data (a.k.a. side information) obtained from sources other than the current acquisition. In this paper, we present the Trust- Guided Variational Network (TGVN), an end-to-end deep learning framework that effectively and reliably integrates side information into LIPs. We demonstrate its effectiveness in multi-coil, multi-contrast MRI reconstruction, where incomplete or low-SNR measurements from one contrast are used as side information to reconstruct high-quality images of another contrast from heavily under-sampled data. TGVN is robust across different contrasts, anatomies, and field strengths. Compared to baselines utilizing side information, TGVN achieves superior image quality while preserving subtle pathological features even at challenging acceleration levels, drastically speeding up acquisition while minimizing hallucinations. Source code and dataset splits are available on github.com/sodicksonlab/TGVN.

eess.IV

An experimental system for detection and localization of hemorrhage using ultra-wideband microwaves with deep learning

Stroke is a leading cause of mortality and disability. Emergent diagnosis and intervention are critical, and predicated upon initial brain imaging; however, existing clinical imaging modalities are generally costly, immobile, and demand highly specialized operation and interpretation. Low-energy microwaves have been explored as low-cost, small form factor, fast, and safe probes of tissue dielectric properties, with both imaging and diagnostic potential. Nevertheless, challenges inherent to microwave reconstruction have impeded progress, hence microwave imaging (MWI) remains an elusive scientific aim. Herein, we introduce a dedicated experimental framework comprising a robotic navigation system to translate blood-mimicking phantoms within an anatomically realistic human head model. An 8-element ultra-wideband (UWB) array of modified antipodal Vivaldi antennas was developed and driven by a two-port vector network analyzer spanning 0.6-9.0 GHz at an operating power of 1 mw. Complex scattering parameters were measured, and dielectric signatures of hemorrhage were learned using a dedicated deep neural network for prediction of hemorrhage classes and localization. An overall sensitivity and specificity for detection >0.99 was observed, with Rayliegh mean localization error of 1.65 mm. The study establishes the feasibility of a robust experimental model and deep learning solution for UWB microwave stroke detection.

physics.med-ph

On the Feasibility of Machine Learning Augmented Magnetic Resonance for Point-of-Care Identification of Disease

Early detection of many life-threatening diseases (e.g., prostate and breast cancer) within at-risk population can improve clinical outcomes and reduce cost of care. While numerous disease-specific "screening" tests that are closer to Point-of-Care (POC) are in use for this task, their low specificity results in unnecessary biopsies, leading to avoidable patient trauma and wasteful healthcare spending. On the other hand, despite the high accuracy of Magnetic Resonance (MR) imaging in disease diagnosis, it is not used as a POC disease identification tool because of poor accessibility. The root cause of poor accessibility of MR stems from the requirement to reconstruct high-fidelity images, as it necessitates a lengthy and complex process of acquiring large quantities of high-quality k-space measurements. In this study we explore the feasibility of an ML-augmented MR pipeline that directly infers the disease sidestepping the image reconstruction process. We hypothesise that the disease classification task can be solved using a very small tailored subset of k-space data, compared to image reconstruction. Towards that end, we propose a method that performs two tasks: 1) identifies a subset of the k-space that maximizes disease identification accuracy, and 2) infers the disease directly using the identified k-space subset, bypassing the image reconstruction step. We validate our hypothesis by measuring the performance of the proposed system across multiple diseases and anatomies. We show that comparable performance to image-based classifiers, trained on images reconstructed with full k-space data, can be achieved using small quantities of data: 8% of the data for detecting multiple abnormalities in prostate and brain scans, and 5% of the data for knee abnormalities. To better understand the proposed approach and instigate future research, we provide an extensive analysis and release code.

cs.LG

Differences between human and machine perception in medical diagnosis

Deep neural networks (DNNs) show promise in image-based medical diagnosis, but cannot be fully trusted since their performance can be severely degraded by dataset shifts to which human perception remains invariant. If we can better understand the differences between human and machine perception, we can potentially characterize and mitigate this effect. We therefore propose a framework for comparing human and machine perception in medical diagnosis. The two are compared with respect to their sensitivity to the removal of clinically meaningful information, and to the regions of an image deemed most suspicious. Drawing inspiration from the natural image domain, we frame both comparisons in terms of perturbation robustness. The novelty of our framework is that separate analyses are performed for subgroups with clinically meaningful differences. We argue that this is necessary in order to avert Simpson's paradox and draw correct conclusions. We demonstrate our framework with a case study in breast cancer screening, and reveal significant differences between radiologists and DNNs. We compare the two with respect to their robustness to Gaussian low-pass filtering, performing a subgroup analysis on microcalcifications and soft tissue lesions. For microcalcifications, DNNs use a separate set of high frequency components than radiologists, some of which lie outside the image regions considered most suspicious by radiologists. These features run the risk of being spurious, but if not, could represent potential new biomarkers. For soft tissue lesions, the divergence between radiologists and DNNs is even starker, with DNNs relying heavily on spurious high frequency components ignored by radiologists. Importantly, this deviation in soft tissue lesions was only observable through subgroup analysis, which highlights the importance of incorporating medical domain knowledge into our comparison framework.

eess.IV

GrappaNet: Combining Parallel Imaging with Deep Learning for Multi-Coil MRI Reconstruction

Magnetic Resonance Image (MRI) acquisition is an inherently slow process which has spurred the development of two different acceleration methods: acquiring multiple correlated samples simultaneously (parallel imaging) and acquiring fewer samples than necessary for traditional signal processing methods (compressed sensing). Both methods provide complementary approaches to accelerating the speed of MRI acquisition. In this paper, we present a novel method to integrate traditional parallel imaging methods into deep neural networks that is able to generate high quality reconstructions even for high acceleration factors. The proposed method, called GrappaNet, performs progressive reconstruction by first mapping the reconstruction problem to a simpler one that can be solved by a traditional parallel imaging methods using a neural network, followed by an application of a parallel imaging method, and finally fine-tuning the output with another neural network. The entire network can be trained end-to-end. We present experimental results on the recently released fastMRI dataset and show that GrappaNet can generate higher quality reconstructions than competing methods for both $4\times$ and $8\times$ acceleration.

eess.IV

Magnetic-resonance-based electrical property mapping using Global Maxwell Tomography with an 8-channel head coil at 7 Tesla: a simulation study

Objective: Global Maxwell Tomography (GMT) is a recently introduced volumetric technique for noninvasive estimation of electrical properties (EP) from magnetic resonance measurements. Previous work evaluated GMT using ideal radiofrequency (RF) excitations. The aim of this simulation study was to assess GMT performance with a realistic RF coil. Methods: We designed a transmit-receive RF coil with $8$ decoupled channels for $7$T head imaging. We calculated the RF transmit field ($B_1^+$) inside heterogeneous head models for different RF shimming approaches, and used them as input for GMT to reconstruct EP for all voxels. Results: Coil tuning/decoupling remained relatively stable when the coil was loaded with different head models. Mean error in EP estimation changed from $7.5\%$ to $9.5\%$ and from $4.8\%$ to $7.2\%$ for relative permittivity and conductivity, respectively, when changing head model without re-tuning the coil. Results slightly improved when an SVD-based RF shimming algorithm was applied, in place of excitation with one coil at a time. Despite errors in EP, RF transmit field ($B_1^+$) and absorbed power could be predicted with less than $0.5\%$ error over the entire head. GMT could accurately detect a numerically inserted tumor. Conclusion: This work demonstrates that GMT can reliably reconstruct EP in realistic simulated scenarios using a tailored 8-channel RF coil design at $7$T. Future work will focus on construction of the coil and optimization of GMT's robustness to noise, to enable in-vivo GMT experiments. Significance: GMT could provide accurate estimations of tissue EP, which could be used as biomarkers and could enable patient-specific estimation of RF power deposition, which is an unsolved problem for ultra-high-field magnetic resonance imaging.

physics.med-ph

Advancing machine learning for MR image reconstruction with an open competition: Overview of the 2019 fastMRI challenge

Purpose: To advance research in the field of machine learning for MR image reconstruction with an open challenge. Methods: We provided participants with a dataset of raw k-space data from 1,594 consecutive clinical exams of the knee. The goal of the challenge was to reconstruct images from these data. In order to strike a balance between realistic data and a shallow learning curve for those not already familiar with MR image reconstruction, we ran multiple tracks for multi-coil and single-coil data. We performed a two-stage evaluation based on quantitative image metrics followed by evaluation by a panel of radiologists. The challenge ran from June to December of 2019. Results: We received a total of 33 challenge submissions. All participants chose to submit results from supervised machine learning approaches. Conclusion: The challenge led to new developments in machine learning for image reconstruction, provided insight into the current state of the art in the field, and highlighted remaining hurdles for clinical adoption.

eess.IV

fastMRI: An Open Dataset and Benchmarks for Accelerated MRI

Accelerating Magnetic Resonance Imaging (MRI) by taking fewer measurements has the potential to reduce medical costs, minimize stress to patients and make MRI possible in applications where it is currently prohibitively slow or expensive. We introduce the fastMRI dataset, a large-scale collection of both raw MR measurements and clinical MR images, that can be used for training and evaluation of machine-learning approaches to MR image reconstruction. By introducing standardized evaluation criteria and a freely-accessible dataset, our goal is to help the community make rapid advances in the state of the art for MR image reconstruction. We also provide a self-contained introduction to MRI for machine learning researchers with no medical imaging background.

cs.CV

Magnetization Transfer in Magnetic Resonance Fingerprinting

Purpose: To study the effects of magnetization transfer (MT, in which a semisolid spin pool interacts with the free pool), in the context of magnetic resonance fingerprinting (MRF). Methods: Simulations and phantom experiments were performed to study the impact of MT on the MRF signal and its potential influence on T1 and T2 estimation. Subsequently, an MRF sequence implementing off-resonance MT pulses and a dictionary with an MT dimension by incorporating a two-pool model were used to estimate the fractional pool size in addition to the B1+, T1, and T2 values. The proposed method was evaluated in the human brain. Results: Simulations and phantom experiments showed that an MRF signal obtained from a cross-linked bovine serum sample is influenced by MT. Using a dictionary based on an MT model, a better match between simulations and acquired MR signals can be obtained (NRMSE 1.3% versus 4.7%). Adding off-resonance MT pulses can improve the differentiation of MT from T1 and T2. In-vivo results showed that MT affects the MRF signals from white matter (fractional pool-size ~16%) and gray matter (fractional pool-size ~10%). Furthermore, longer T1 (~1060 ms versus ~860 ms) and T2 values (~47 ms versus ~35 ms) can be observed in white matter if MT is accounted for. Conclusion: Our experiments demonstrated a potential influence of MT on the quantification of T1 and T2 with MRF. A model that encompasses MT effects can improve the accuracy of estimated relaxation parameters and allows quantification of the fractional pool size.

eess.IV

Training a Neural Network for Gibbs and Noise Removal in Diffusion MRI

We develop and evaluate a neural network-based method for Gibbs artifact and noise removal. A convolutional neural network (CNN) was designed for artifact removal in diffusion-weighted imaging data. Two implementations were considered: one for magnitude images and one for complex images. Both models were based on the same encoder-decoder structure and were trained by simulating MRI acquisitions on synthetic non-MRI images. Both machine learning methods were able to mitigate artifacts in diffusion-weighted images and diffusion parameter maps. The CNN for complex images was also able to reduce artifacts in partial Fourier acquisitions. The proposed CNNs extend the ability of artifact correction in diffusion MRI. The machine learning method described here can be applied on each imaging slice independently, allowing it to be used flexibly in clinical applications.

eess.IV

Deep Learning Methods for Parallel Magnetic Resonance Image Reconstruction

Following the success of deep learning in a wide range of applications, neural network-based machine learning techniques have received interest as a means of accelerating magnetic resonance imaging (MRI). A number of ideas inspired by deep learning techniques from computer vision and image processing have been successfully applied to non-linear image reconstruction in the spirit of compressed sensing for both low dose computed tomography and accelerated MRI. The additional integration of multi-coil information to recover missing k-space lines in the MRI reconstruction process, is still studied less frequently, even though it is the de-facto standard for currently used accelerated MR acquisitions. This manuscript provides an overview of the recent machine learning approaches that have been proposed specifically for improving parallel imaging. A general background introduction to parallel MRI is given that is structured around the classical view of image space and k-space based methods. Both linear and non-linear methods are covered, followed by a discussion of recent efforts to further improve parallel imaging using machine learning, and specifically using artificial neural networks. Image-domain based techniques that introduce improved regularizers are covered as well as k-space based methods, where the focus is on better interpolation strategies using neural networks. Issues and open problems are discussed as well as recent efforts for producing open datasets and benchmarks for the community.

eess.SP

The Optimality Principle for MR signal excitation and reception: New physical insights into ideal radiofrequency coil design

Purpose: Despite decades of collective experience, radiofrequency coil optimization for MR has remained a largely empirical process, with clear insight into what might constitute truly task-optimal, as opposed to merely 'good,' coil performance being difficult to come by. Here, a new principle, the Optimality Principle, is introduced, which allows one to predict, rapidly and intuitively, the form of optimal current patterns on any surface surrounding any arbitrary body. Theory: The Optimality Principle, in its simplest form, states that the surface current pattern associated with optimal transmit field or receive sensitivity at a point of interest (per unit current integrated over the surface) is a precise scaled replica of the tangential electric field pattern that would be generated on the surface by a precessing spin placed at that point. A more general perturbative formulation enables efficient calculation of the pattern modifications required to optimize signal-to-noise ratio in body-noise-dominated situations. Methods and Results: The unperturbed principle is validated numerically, and convergence of the perturbative formulation is explored in simple geometries. Current patterns and corresponding field patterns in a variety of concrete cases are then used to separate signal and noise effects in coil optimization, to understand the emergence of electric dipoles as strong performers at high frequency, and to highlight the importance of surface geometry in coil design. Conclusion: Like the Principle of Reciprocity from which it is derived, the Optimality Principle offers both a conceptual and a computational shortcut. In addition to providing quantitative targets for coil design, the Optimality Principle affords direct physical insight into the fundamental determinants of coil performance.

physics.ins-det

Hybrid-State Free Precession in Nuclear Magnetic Resonance

The dynamics of large spin-1/2 ensembles in the presence of a varying magnetic field are commonly described by the Bloch equation. Most magnetic field variations result in unintuitive spin dynamics, which are sensitive to small deviations in the driving field. Although simplistic field variations can produce robust dynamics, the captured information content is impoverished. Here, we identify adiabaticity conditions that span a rich experiment design space with tractable dynamics. These adiabaticity conditions trap the spin dynamics in a one-dimensional subspace. Namely, the dynamics is captured by the absolute value of the magnetization, which is in a transient state, while its direction adiabatically follows the steady state. We define the hybrid state as the co-existence of these two states and identify the polar angle as the effective driving force of the spin dynamics. As an example, we optimize this drive for robust and efficient quantification of spin relaxation times and utilize it for magnetic resonance imaging of the human brain.

physics.med-ph

High Impedance Detector Arrays for Magnetic Resonance

Resonant inductive coupling is commonly seen as an undesired fundamental phenomenon emergent in densely packed resonant structures, such as nuclear magnetic resonance phased array detectors. The need to mitigate coupling imposes rigid constraints on the detector design, impeding performance and limiting the scope of magnetic resonance experiments. Here we introduce a high impedance detector design, which can cloak itself from electrodynamic interactions with neighboring elements. We verify experimentally that the high impedance detectors do not suffer from signal-to-noise degradation mechanisms observed with traditional low impedance elements. Using this new-found robustness, we demonstrate an adaptive wearable detector array for magnetic resonance imaging of the hand. The unique properties of the detector glove reveal new pathways to study the biomechanics of soft tissues, and exemplify the enabling potential of high-impedance detectors for a wide range of demanding applications that are not well suited to traditional coil designs.

physics.ins-det

Cutoff-Free Traveling Wave NMR

Recently, the concept of traveling-wave NMR/MRI was introduced by Brunner et al. (Nature 457, 994-992 (2009)), who demonstrated MR images acquired using radio frequency (RF) waves propagating down the bore of an MR scanner. One of the significant limitations of this approach is that each bore has a specific cutoff frequency, which can be higher than most Larmor frequencies of at the magnetic field strengths commonly in use for MR imaging and spectroscopy today. We overcome this limitation by using a central conductor in the waveguide and thereby converting it to a transmission line (TL), which has no cutoff frequency. Broadband propagation of waves through the sample thus becomes possible. NMR spectra and images with such an arrangement are presented and genuine traveling wave behavior is demonstrated. In addition to facilitating NMR spectroscopy and imaging in smaller bores via traveling waves, this approach also allows one to perform multinuclear traveling wave experiments (an example of which is shown), and to study otherwise difficult-to-access samples in unusual geometries.

physics.ins-det