arXiv subjects

David E. J. Waddington

Publications and source records attributed to David E. J. Waddington.

13 recordsLinked to original sources

arXiv2026

Closed-loop coupling of personalised and foundation models for real-time treatment guidance with MRI

Image-guided therapies, including radiotherapy, biopsy and deep brain stimulation, rely on real-time targeting of anatomical structures. However, in the presence of motion, imaging latencies create a temporal misalignment between observed and true anatomy, compromising treatment accuracy. Artificial intelligence-based frameworks have increasingly been presented to close this latency gap, but leading personalised models can fail due to a lack of stable anatomical grounding. Foundation models can provide grounded behaviour, but they do not adapt to real-time, individual patient dynamics. Here we introduce a closed-loop coupling framework that synergises patient-specific temporal prediction with continuous segmentation-based anatomical interpretation from a foundation model. A personalised model predicts future anatomy to compensate for system latency, while a streaming foundation model provides anatomical supervision used to continuously update the temporal predictor in real time during treatment. We validate the framework using a digital phantom and intrafraction magnetic resonance imaging (MRI) from patients undergoing MRI-guided radiotherapy. For a prediction horizon of 400 ms, the proposed method improves anatomical prediction and reduces dosimetric error compared with existing approaches, within clinically relevant latency constraints. These results establish closed-loop coupling as a general strategy for real-time image-guided intervention.

physics.med-ph↗

arXiv2026

Enhancing Ultra-low-field MRI with Segmentation-guided Adversarial Learning

Ultra-low-field (ULF) MRI offers portable and low-cost imaging but suffers from poor image quality. To address this, we present our submission to the 2025 ULF Enhancement Challenge (ULF-EnC), where the goal is to synthesise high-field-like MRIs from 64 mT scans. Our pipeline enhances ULF MRI through a combination of anatomical conditioning and model ensembling. We first generate tissue segmentation priors using a Swin UNETR trained solely on challenge-provided data. These priors condition two independent enhancement networks - a CycleGAN and a transformer-based residual enhancement model (T-REX) - each trained to synthesise 3 T-like MRIs. Outputs from both models are combined using a weighted average. Our approach produces enhanced MRIs that were comparable to high-field scans both quantitatively and qualitatively.

cs.CV↗

arXiv2025

Two-stage Respiratory Motion-resolved Radial MR Image Reconstruction Using an Interpretable Deep Unrolled Network

Due to the prolonged MRI encoding process, respiratory motion can cause undesired artifacts and image blurring, degrading image quality and limiting clinical applications in abdominal and pulmonary imaging. In this work, we develop a two-stage respiratory motion-resolved radial MR image reconstruction pipeline using an interpretable deep unrolled network (MoraNet), enabling high-quality imaging under free-breathing conditions. Firstly, low-resolution images are reconstructed from the central region of successive golden-angle radial k-space to extract respiratory motion signals. The binned k-space data based on the respiratory signal are then used to reconstruct the motion-resolved high-resolution image for each motion state. The MoraNet applies nonuniform fast Fourier transform (NUFFT) to operate radial encoding and convolutional neural network (CNN) modules to conduct image regularizations. The MoraNet was trained on retrospectively acquired lung MRI images for both fully sampled and undersampled acquisitions. The performance of the proposed method was evaluated on digital CT/MRI breathing XCAT (CoMBAT) phantom data, QUASAR motion phantom data acquired from a 1.0T MRI scanner and volunteer chest data acquired from a 1.5T MRI scanner. The MoraNet pipeline was compared with motion-averaged reconstruction and a conventional compressed sensing (CS)-based method in terms of SSIM, RMSE and computation time. Simulation and experimental results demonstrated that the proposed network could provide accurate respiratory signal estimation and enable effective motion correction. Compared with the CS method, the MoraNet preserved better structural details with lower RMSE and higher SSIM values at acceleration factor of 4, and meanwhile took ten-fold faster inference time.

physics.med-ph↗

arXiv2025

Design and Construction of a Dedicated Radiolucent 8-element Flexible Radiofrequency (RF) Torso Coil for the 1.0T Australian MRI-Linac System

Magnetic resonance imaging-guided linear accelerators (MRI-Linacs) are an emerging treatment technology that enable online soft-tissue visualisation and adaptive radiotherapy. The Australian 1.0 T MRI-Linac employs a fixed, inline beamline, with treatment angles achieved via patient couch rotation, and currently relies on a radiolucent whole-body radiofrequency (RF) coil. However, the large coil-patient separation limits signal-to-noise ratio (SNR) and constrains the fast imaging required for real-time tumour tracking. Here, we show the design and validation of a dedicated, flexible 8-element receive-only RF torso array tailored to the geometry and beam access requirements of the Australian MRI-Linac. Electromagnetic simulations, bench measurements, and phantom imaging demonstrate approximately three-fold SNR improvement at the centre and eight-fold improvement at superficial regions compared with the whole-body coil. In vivo abdominal imaging confirms enhanced anatomical detail and sharper tissue boundaries, and the increased SNR enables parallel imaging with GRAPPA acceleration factors up to three without severe artefacts. Dosimetry measurements and dynamic beam-on noise analysis confirm that the coil array is effectively radiolucent, with dose differences below 1% and no measurable degradation in image noise. This work demonstrates a practical RF solution for accelerated, high-SNR imaging compatible with patient rotation and beam delivery on the Australian MRI-Linac.

physics.med-ph↗

arXiv2025

Accelerating Low-field MRI: From Compressed Sensing to Deep Learning Reconstruction with CNNs and Transformers

Portable, low-field Magnetic Resonance Imaging (MRI) scanners are increasingly being deployed in clinical settings. However, key barriers to their widespread use include low signal-to-noise ratio (SNR), generally low image quality, and long scan durations. Hence, methods for accelerating acquisition and boosting image quality are critically important to enable clinically actionable, high-quality imaging in these systems. Despite the role that compressed sensing (CS) and deep learning (DL)-based methods have played in improving image quality for high-field MRI, their adoption for low-field imaging is still in its infancy, and it remains unclear how robust these methods are in low-SNR regimes. Here, we propose, investigate, and compare four reconstruction approaches: (i) L1-wavelet CS; (ii) a data-driven network; (iii) an unrolled network; and (iv) a Swin Transformer Cascade. We evaluate their performance across a range of SNR values using publicly available datasets and ultra-low field (6.5 mT) MRI data. Our results show that the unrolled network and Swin Transformer cascade outperform CS and data-driven models. While transformer-based models achieve the highest performance at high SNR, unrolled convolution-based networks are more robust in ultra-low SNR settings and often outperform transformers, indicating that simpler DL architectures may be better suited to low-field MRI. This work highlights both the potential and limitations of advanced reconstruction techniques in low-field MRI and pinpoints effective DL strategies for addressing SNR challenges.

physics.med-ph↗

arXiv2025

Ultra-low field 13C MRI of hyperpolarized pyruvate

Medicine is evolving beyond therapy largely predicated on anatomical information and towards incorporating patient-specific molecular biomarkers of disease for more accurate diagnosis and effective treatment. The complementary combination of hyperpolarization by spin-lock induced crossing signal amplification by reversible exchange (SLIC SABRE) and low field magnetic resonance imaging (MRI) can enable accessible metabolic imaging to advance personalized medicine. Hyperpolarized 13C-enriched pyruvate has demonstrated utility for MRI of metabolism in cancer, heart disease and neurodegenerative disorders but has been restricted from widespread clinical adoption by a lack of access to affordable technology. Parahydrogen-based polarization techniques, paired with low-cost high-performance MRI at millitesla fields, offer a means of broadening the reach of metabolic imaging. Here we show results demonstrating in situ hyperpolarization of pyruvate at 6.5 mT by SLIC SABRE, followed by immediate readout without field cycling or sample shuttling. We achieve 13C signal enhancements several million times above thermal equilibrium at 6.5 mT, corresponding to polarization levels of approximately 3%. Leveraging this enhancement, we perform 13C MRI and acquire NMR spectra with resolution sufficient to distinguish chemical shifts between pyruvate isotopomers. These results show a viable pathway towards accessible metabolic imaging with hyperpolarized 13C MRI at ultra-low field.

physics.med-ph↗

arXiv2024

Image Reconstruction with B0 Inhomogeneity using an Interpretable Deep Unrolled Network on an Open-bore MRI-Linac

MRI-Linac systems require fast image reconstruction with high geometric fidelity to localize and track tumours for radiotherapy treatments. However, B0 field inhomogeneity distortions and slow MR acquisition potentially limit the quality of the image guidance and tumour treatments. In this study, we develop an interpretable unrolled network, referred to as RebinNet, to reconstruct distortion-free images from B0 inhomogeneity-corrupted k-space for fast MRI-guided radiotherapy applications. RebinNet includes convolutional neural network (CNN) blocks to perform image regularizations and nonuniform fast Fourier Transform (NUFFT) modules to incorporate B0 inhomogeneity information. The RebinNet was trained on a publicly available MR dataset from eleven healthy volunteers for both fully sampled and subsampled acquisitions. Grid phantom and human brain images acquired from an open-bore 1T MRI-Linac scanner were used to evaluate the performance of the proposed network. The RebinNet was compared with the conventional regularization algorithm and our recently developed UnUNet method in terms of root mean squared error (RMSE), structural similarity (SSIM), residual distortions, and computation time. Imaging results demonstrated that the RebinNet reconstructed images with lowest RMSE (<0.05) and highest SSIM (>0.92) at four-time acceleration for simulated brain images. The RebinNet could better preserve structural details and substantially improve the computational efficiency (ten-fold faster) compared to the conventional regularization methods, and had better generalization ability than the UnUNet method. The proposed RebinNet can achieve rapid image reconstruction and overcome the B0 inhomogeneity distortions simultaneously, which would facilitate accurate and fast image guidance in radiotherapy treatments.

physics.med-ph↗

arXiv2023

Distortion-Corrected Image Reconstruction with Deep Learning on an MRI-Linac

Magnetic resonance imaging (MRI) is increasingly utilized for image-guided radiotherapy due to its outstanding soft-tissue contrast and lack of ionizing radiation. However, geometric distortions caused by gradient nonlinearity (GNL) limit anatomical accuracy, potentially compromising the quality of tumour treatments. In addition, slow MR acquisition and reconstruction limit the potential for real-time image guidance. Here, we demonstrate a deep learning-based method that rapidly reconstructs distortion-corrected images from raw k-space data for real-time MR-guided radiotherapy applications. We leverage recent advances in interpretable unrolling networks to develop a Distortion-Corrected Reconstruction Network (DCReconNet) that applies convolutional neural networks (CNNs) to learn effective regularizations and nonuniform fast Fourier transforms for GNL-encoding. DCReconNet was trained on a public MR brain dataset from eleven healthy volunteers for fully sampled and accelerated techniques including parallel imaging (PI) and compressed sensing (CS). The performance of DCReconNet was tested on phantom and volunteer brain data acquired on a 1.0T MRI-Linac. The DCReconNet, CS- and PI-based reconstructed image quality was measured by structural similarity (SSIM) and root-mean-squared error (RMSE) for numerical comparisons. The computation time for each method was also reported. Phantom and volunteer results demonstrated that DCReconNet better preserves image structure when compared to CS- and PI-based reconstruction methods. DCReconNet resulted in highest SSIM (0.95 median value) and lowest RMSE (<0.04) on simulated brain images with four times acceleration. DCReconNet is over 100-times faster than iterative, regularized reconstruction methods. DCReconNet provides fast and geometrically accurate image reconstruction and has potential for real-time MRI-guided radiotherapy applications.

physics.med-ph↗

arXiv2022

On Real-time Image Reconstruction with Neural Networks for MRI-guided Radiotherapy

MRI-guidance techniques that dynamically adapt radiation beams to follow tumor motion in real-time will lead to more accurate cancer treatments and reduced collateral healthy tissue damage. The gold-standard for reconstruction of undersampled MR data is compressed sensing (CS) which is computationally slow and limits the rate that images can be available for real-time adaptation. Here, we demonstrate the use of automated transform by manifold approximation (AUTOMAP), a generalized framework that maps raw MR signal to the target image domain, to rapidly reconstruct images from undersampled radial k-space data. The AUTOMAP neural network was trained to reconstruct images from a golden-angle radial acquisition, a benchmark for motion-sensitive imaging, on lung cancer patient data and generic images from ImageNet. Model training was subsequently augmented with motion-encoded k-space data derived from videos in the YouTube-8M dataset to encourage motion robust reconstruction. We find that AUTOMAP-reconstructed radial k-space has equivalent accuracy to CS but with much shorter processing times after initial fine-tuning on retrospectively acquired lung cancer patient data. Validation of motion-trained models with a virtual dynamic lung tumor phantom showed that the generalized motion properties learned from YouTube lead to improved target tracking accuracy. Our work shows that AUTOMAP can achieve real-time, accurate reconstruction of radial data. These findings imply that neural-network-based reconstruction is potentially superior to existing approaches for real-time image guidance applications.

physics.med-ph↗

arXiv2017

Phase-Encoded Hyperpolarized Nanodiamond for Magnetic Resonance Imaging

Surface-functionalized nanomaterials can act as theranostic agents that detect disease and track biological processes using hyperpolarized magnetic resonance imaging (MRI). Candidate materials are sparse however, requiring spinful nuclei with long spin-lattice relaxation (T1) and spin-dephasing times (T2), together with a reservoir of electrons to impart hyperpolarization. Here, we demonstrate the versatility of the nanodiamond material system for hyperpolarized 13C MRI, making use of its intrinsic paramagnetic defect centers, hours-long nuclear T1 times, and T2 times suitable for spatially resolving millimeter-scale structures. Combining these properties, we enable a new imaging modality that exploits the phase-contrast between spins encoded with a hyperpolarization that is aligned, or anti-aligned with the external magnetic field. The use of phase-encoded hyperpolarization allows nanodiamonds to be tagged and distinguished in an MRI based on their spin-orientation alone, and could permit the action of specific bio-functionalized complexes to be directly compared and imaged.

physics.med-ph↗

arXiv2016

Nanodiamond-enhanced MRI

Nanodiamonds are of interest as nontoxic substrates for targeted drug delivery and as highly biostable fluorescent markers for cellular tracking. Beyond optical techniques however, options for noninvasive imaging of nanodiamonds in vivo are severely limited. Here, we demonstrate that the Overhauser effect, a proton-electron double resonance technique developed to detect free radicals in vivo, can enable high contrast magnetic resonance imaging (MRI) of nanodiamonds in water at room temperature and ultra-low magnetic field. The technique transfers spin polarization from paramagnetic impurities at nanodiamond surfaces to $^1$H spins in the surrounding water solution, creating MRI contrast on-demand. We further examine the conditions required for maximum enhancement as well as the ultimate sensitivity of the technique. The ability to perform continuous hyperpolarization via the Overhauser mechanism, in combination with excellent in vivo stability, raises the possibility of performing noninvasive tracking of nanodiamonds over indefinitely long periods of time.

cond-mat.mes-hall↗

arXiv2016

Hyperpolarized Nanodiamond Surfaces

The widespread use of nanodiamond as a biomedical platform for drug-delivery, imaging, and sub-cellular tracking applications stems from their non-toxicity and unique quantum mechanical properties. Here, we extend this functionality to the domain of magnetic resonance, by demonstrating that the intrinsic electron spins on the nanodiamond surface can be used to hyperpolarize adsorbed liquid compounds at room temperature. By combining relaxation measurements with hyperpolarization, spins on the surface of the nanodiamond can be distinguished from those in the bulk liquid. These results are likely of use in signaling the controlled release of pharmaceutical payloads.

cond-mat.mes-hall↗

arXiv2015

Hyperpolarized Nanodiamond with Long Spin Relaxation Times

The use of hyperpolarized agents in magnetic resonance (MR), such as 13C-labeled compounds, enables powerful new imaging and detection modalities that stem from a 10,000-fold boost in signal. A major challenge for the future of the hyperpolarizaton technique is the inherently short spin relaxation times, typically < 60 seconds for 13C liquid-state compounds, which limit the time that the signal remains boosted. Here, we demonstrate that 1.1% natural abundance 13C spins in synthetic nanodiamond (ND) can be hyperpolarized at cryogenic and room temperature without the use of toxic free- radicals, and, owing to their solid-state environment, exhibit relaxation times exceeding 1 hour. Combined with the already established applications of NDs in the life-sciences as inexpensive fluorescent markers and non-cytotoxic substrates for gene and drug delivery, these results extend the theranostic capabilities of nanoscale diamonds into the domain of hyperpolarized MR.

cond-mat.mes-hall↗