Fanwen Wang

Chengyan Wang, Jun Lyu, Shuo Wang et al.

Cardiac magnetic resonance imaging (CMR) has emerged as a valuable diagnostic tool for cardiac diseases. However, a limitation of CMR is its slow imaging speed, which causes patient discomfort and introduces artifacts in the images. There has been growing interest in deep learning-based CMR imaging algorithms that can reconstruct high-quality images from highly under-sampled k-space data. However, the development of deep learning methods requires large training datasets, which have not been publicly available for CMR. To address this gap, we released a dataset that includes multi-contrast, multi-view, multi-slice and multi-coil CMR imaging data from 300 subjects. Imaging studies include cardiac cine and mapping sequences. Manual segmentations of the myocardium and chambers of all the subjects are also provided within the dataset. Scripts of state-of-the-art reconstruction algorithms were also provided as a point of reference. Our aim is to facilitate the advancement of state-of-the-art CMR image reconstruction by introducing standardized evaluation criteria and making the dataset freely accessible to the research community. Researchers can access the dataset at https://www.synapse.org/#!Synapse:syn51471091/wiki/.

Yinzhe Wu, Fanwen Wang, Zhenxuan Zhang et al.

Undersampled magnetic resonance imaging (MRI) reconstruction seeks to recover temporally or contrast-varying image series from incomplete multicoil k-space data while preserving state-dependent fidelity for dynamic and quantitative MRI (qMRI). Existing scan-specific implicit neural representations (INRs) often use monolithic spatiotemporal coordinate fields, explicit subspaces, motion or deformation models, calibration variables, or sequence-specific quantitative signal models. These design choices can limit flexibility in sharing spatial information while adapting image synthesis across acquisition states. Moreover, many INR-based baselines remain computationally demanding, typically requiring per-scan optimization times on the order of hundreds to thousands of seconds. We propose MoE-dqINR, a scan-specific multicoil MRI reconstruction framework that factorizes the image-domain representation into shared spatial experts and a state-conditioned routing pathway. Spatial experts encode reusable coordinate-dependent image content, whereas routing weights, conditioned on ordered acquisition states, synthesize each dynamic frame or contrast state from a common expert bank. The representation is coupled to a multicoil MRI forward model, uses the normalized state index to drive routing in both dynamic and quantitative MRI. By separating shared spatial representation from state-dependent synthesis, the framework provides an image-first architecture for dynamic and quantitative MRI while reducing scan-specific INR optimization to approximately 30 s per scan in our experiments. The proposed formulation establishes state-conditioned mixture-of-experts INR as a scan-specific multicoil MRI reconstruction prior that unifies shared spatial representation, dynamic- and qMRI-specific synthesis, and practical per-scan efficiency.

Zi Wang, Mingkai Huang, Zhang Shi et al.

Multimodal cardiovascular magnetic resonance (CMR) imaging provides comprehensive and non-invasive insights into cardiovascular disease (CVD) diagnosis and underlying mechanisms. Despite decades of advancements, its widespread clinical adoption remains constrained by prolonged scan times and heterogeneity across medical environments. This underscores the urgent need for a generalist reconstruction foundation model for ultra-fast CMR imaging, one capable of adapting across diverse imaging scenarios and serving as the essential substrate for all downstream analyses. To enable this goal, we curate MMCMR-427K, the largest and most comprehensive multimodal CMR k-space database to date, comprising 427,465 multi-coil k-space data paired with structured metadata across 13 international centers, 12 CMR modalities, 15 scanners, and 17 CVD categories in populations across three continents. Building on this unprecedented resource, we introduce CardioMM, a generalist reconstruction foundation model capable of dynamically adapting to heterogeneous fast CMR imaging scenarios. CardioMM unifies semantic contextual understanding with physics-informed data consistency to deliver robust reconstructions across varied scanners, protocols, and patient presentations. Comprehensive evaluations demonstrate that CardioMM achieves state-of-the-art performance in the internal centers and exhibits strong zero-shot generalization to unseen external settings. Even at imaging acceleration up to 24x, CardioMM reliably preserves key cardiac phenotypes, quantitative myocardial biomarkers, and diagnostic image quality, enabling a substantial increase in CMR examination throughput without compromising clinical integrity. Together, our open-access MMCMR-427K database and CardioMM framework establish a scalable pathway toward high-throughput, high-quality, and clinically accessible cardiovascular imaging.

Yinzhe Wu, Jiahao Huang, Fanwen Wang et al.

Diffusion Tensor Cardiac Magnetic Resonance (DT-CMR) is the only in vivo method to non-invasively examine the microstructure of the human heart. Current research in DT-CMR aims to improve the understanding of how the cardiac microstructure relates to the macroscopic function of the healthy heart as well as how microstructural dysfunction contributes to disease. To get the final DT-CMR metrics, we need to acquire diffusion weighted images of at least 6 directions. However, due to DWI's low signal-to-noise ratio, the standard voxel size is quite big on the scale for microstructures. In this study, we explored the potential of deep-learning-based methods in improving the image quality volumetrically (x4 in all dimensions). This study proposed a novel framework to enable volumetric super-resolution, with an additional model input of high-resolution b0 DWI. We demonstrated that the additional input could offer higher super-resolved image quality. Going beyond, the model is also able to super-resolve DWIs of unseen b-values, proving the model framework's generalizability for cardiac DWI superresolution. In conclusion, we would then recommend giving the model a high-resolution reference image as an additional input to the low-resolution image for training and inference to guide all super-resolution frameworks for parametric imaging where a reference image is available.

Yihao Luo, Dario Sesia, Fanwen Wang et al.

Mesh reconstruction of the cardiac anatomy from medical images is useful for shape and motion measurements and biophysics simulations to facilitate the assessment of cardiac function and health. However, 3D medical images are often acquired as 2D slices that are sparsely sampled and noisy, and mesh reconstruction on such data is a challenging task. Traditional voxel-based approaches rely on pre- and post-processing that compromises image fidelity, while mesh-level deep learning approaches require mesh annotations that are difficult to get. Therefore, direct cross-domain supervision from 2D images to meshes is a key technique for advancing 3D learning in medical imaging, but it has not been well-developed. While there have been attempts to approximate the optimized meshes' slicing, few existing methods directly use 2D slices to supervise mesh reconstruction in a differentiable manner. Here, we propose a novel explicit differentiable voxelization and slicing (DVS) algorithm that allows gradient backpropagation to a mesh from its slices, facilitating refined mesh optimization directly supervised by the losses defined on 2D images. Further, we propose an innovative framework for extracting patient-specific left ventricle (LV) meshes from medical images by coupling DVS with a graph harmonic deformation (GHD) mesh morphing descriptor of cardiac shape that naturally preserves mesh quality and smoothness during optimization. Experimental results demonstrate that our method achieves state-of-the-art performance in cardiac mesh reconstruction tasks from CT and MRI, with an overall Dice score of 90% on multi-datasets, outperforming existing approaches. The proposed method can further quantify clinically useful parameters such as ejection fraction and global myocardial strains, closely matching the ground truth and surpassing the traditional voxel-based approach in sparse images.

Jiahao Huang, Liutao Yang, Fanwen Wang et al.

The recent Mamba model has shown remarkable adaptability for visual representation learning, including in medical imaging tasks. This study introduces MambaMIR, a Mamba-based model for medical image reconstruction, as well as its Generative Adversarial Network-based variant, MambaMIR-GAN. Our proposed MambaMIR inherits several advantages, such as linear complexity, global receptive fields, and dynamic weights, from the original Mamba model. The innovated arbitrary-mask mechanism effectively adapt Mamba to our image reconstruction task, providing randomness for subsequent Monte Carlo-based uncertainty estimation. Experiments conducted on various medical image reconstruction tasks, including fast MRI and SVCT, which cover anatomical regions such as the knee, chest, and abdomen, have demonstrated that MambaMIR and MambaMIR-GAN achieve comparable or superior reconstruction results relative to state-of-the-art methods. Additionally, the estimated uncertainty maps offer further insights into the reliability of the reconstruction quality. The code is publicly available at https://github.com/ayanglab/MambaMIR.

Zhenxuan Zhang, Peiyuan Jing, Ruicheng Yuan et al.

Low-field to high-field MRI synthesis has emerged as a cost-effective strategy to enhance image quality under hardware and acquisition constraints, particularly in scenarios where access to high-field scanners is limited or impractical. Despite recent progress in diffusion models, diffusion-based approaches often struggle to balance fine-detail recovery and structural fidelity. In particular, the uncontrolled generation of high-resolution details in structurally ambiguous regions may introduce anatomically inconsistent patterns, such as spurious edges or artificial texture variations. These artifacts can bias downstream quantitative analysis. For example, they may cause inaccurate tissue boundary delineation or erroneous volumetric estimation, ultimately reducing clinical trust in synthesized images. These limitations highlight the need for generative models that are not only visually accurate but also spatially reliable and anatomically consistent. To address this issue, we propose a reliability-aware diffusion framework (ReDiff) that improves synthesis robustness at both the sampling and post-generation stages. Specifically, we introduce a reliability-guided sampling strategy to suppress unreliable responses during the denoising process. We further develop an uncertainty-aware multi-candidate selection scheme to enhance the reliability of the final prediction. Experiments on multi-center MRI datasets demonstrate improved structural fidelity and reduced artifacts compared with state-of-the-art methods.

Yinzhe Wu, Hongyu Rui, Fanwen Wang et al.

Rotating-view thick-slice acquisition is highly SNR-efficient for mesoscale diffusion MRI (dMRI) but requires numerous rotating views to satisfy Nyquist sampling, resulting in long scan time. We propose a self-supervised Spatial-Angular Implicit Neural Representation (SA-INR) that reconstructs high-resolution dMRI from a single view per diffusion direction, representing a massive acceleration. Our model, an MLP conditioned on a b=0 structural prior and the b-direction via FiLM, is trained end-to-end on the anisotropic input. The framework not only accurately reconstructs the trained b-directions (spatial SR) but also learns a continuous q-space representation, enabling high-fidelity "zero-shot" synthesis of unseen b-directions (angular SR). On simulated data, our method achieved high fidelity for both trained (34.82 dB) and unseen (33.08 dB) directions. Most importantly, the synthesized angular data also improved the quantitative accuracy of downstream DTI model fitting. Our SA-INR framework breaks the classical sampling limits, paving the way for fast, quantitative high-resolution dMRI.

Yinzhe Wu, Jiahao Huang, Fanwen Wang et al.

Diffusion MRI (dMRI) is essential for studying brain microstructure, but high-resolution imaging remains challenging due to the inherent trade-offs between acquisition time and signal-to-noise ratio (SNR). Conventional methods often optimize only the diffusion-weighted images (DWIs) without considering their relationship with the non-diffusion-weighted (b=0) reference images. However, calculating diffusion metrics, such as the apparent diffusion coefficient (ADC) and diffusion tensor with its derived metrics like fractional anisotropy (FA) and mean diffusivity (MD), relies on the ratio between each DWI and the b=0 image, which is crucial for clinical observation and diagnostics. In this study, we demonstrate that solely enhancing DWIs using a conventional pixel-wise mean squared error (MSE) loss is insufficient, as the error in ratio between generated DWIs and b=0 diverges. We propose a novel ratio loss, defined as the MSE loss between the predicted and ground-truth log of DWI/b=0 ratios. Our results show that incorporating the ratio loss significantly improves the convergence of this ratio error, achieving lower ratio MSE and slightly enhancing the peak signal-to-noise ratio (PSNR) of generated DWIs. This leads to improved dMRI super-resolution and better preservation of b=0 ratio-based features for the derivation of diffusion metrics.

Zhenxuan Zhang, Peiyuan Jing, Zi Wang et al.

Synthesizing high-quality images from low-field MRI holds significant potential. Low-field MRI is cheaper, more accessible, and safer, but suffers from low resolution and poor signal-to-noise ratio. This synthesis process can reduce reliance on costly acquisitions and expand data availability. However, synthesizing high-field MRI still suffers from a clinical fidelity gap. There is a need to preserve anatomical fidelity, enhance fine-grained structural details, and bridge domain gaps in image contrast. To address these issues, we propose a \emph{cyclic self-supervised diffusion (CSS-Diff)} framework for high-field MRI synthesis from real low-field MRI data. Our core idea is to reformulate diffusion-based synthesis under a cycle-consistent constraint. It enforces anatomical preservation throughout the generative process rather than just relying on paired pixel-level supervision. The CSS-Diff framework further incorporates two novel processes. The slice-wise gap perception network aligns inter-slice inconsistencies via contrastive learning. The local structure correction network enhances local feature restoration through self-reconstruction of masked and perturbed patches. Extensive experiments on cross-field synthesis tasks demonstrate the effectiveness of our method, achieving state-of-the-art performance (e.g., 31.80 $\pm$ 2.70 dB in PSNR, 0.943 $\pm$ 0.102 in SSIM, and 0.0864 $\pm$ 0.0689 in LPIPS). Beyond pixel-wise fidelity, our method also preserves fine-grained anatomical structures compared with the original low-field MRI (e.g., left cerebral white matter error drops from 12.1$\%$ to 2.1$\%$, cortex from 4.2$\%$ to 3.7$\%$). To conclude, our CSS-Diff can synthesize images that are both quantitatively reliable and anatomically consistent.

Zhenxuan Zhang, Lipei Zhang, Yanqi Cheng et al.

In motion-robust magnetic resonance imaging (MRI), slice-to-volume reconstruction is critical for recovering anatomically consistent 3D brain volumes from 2D slices, especially under accelerated acquisitions or patient motion. However, this task remains challenging due to hierarchical structural disruptions. It includes local detail loss from k-space undersampling, global structural aliasing caused by motion, and volumetric anisotropy. Therefore, we propose a progressive refinement implicit neural representation (PR-INR) framework. Our PR-INR unifies motion correction, structural refinement, and volumetric synthesis within a geometry-aware coordinate space. Specifically, a motion-aware diffusion module is first employed to generate coarse volumetric reconstructions that suppress motion artifacts and preserve global anatomical structures. Then, we introduce an implicit detail restoration module that performs residual refinement by aligning spatial coordinates with visual features. It corrects local structures and enhances boundary precision. Further, a voxel continuous-aware representation module represents the image as a continuous function over 3D coordinates. It enables accurate inter-slice completion and high-frequency detail recovery. We evaluate PR-INR on five public MRI datasets under various motion conditions (3% and 5% displacement), undersampling rates (4x and 8x) and slice resolutions (scale = 5). Experimental results demonstrate that PR-INR outperforms state-of-the-art methods in both quantitative reconstruction metrics and visual quality. It further shows generalization and robustness across diverse unseen domains.

Congren Dai, Huichi Zhou, Jiahao Huang et al.

Online Continual Learning (OCL) presents a complex learning environment in which new data arrives in a batch-to-batch online format, and the risk of catastrophic forgetting can significantly impair model efficacy. In this study, we address OCL by introducing an innovative memory framework that incorporates a short-term memory system to retain dynamic information and a long-term memory system to archive enduring knowledge. Specifically, the long-term memory system comprises a collection of sub-memory buffers, each linked to a cluster prototype and designed to retain data samples from distinct categories. We propose a novel $K$-means-based sample selection method to identify cluster prototypes for each encountered category. To safeguard essential and critical samples, we introduce a novel memory optimisation strategy that selectively retains samples in the appropriate sub-memory buffer by evaluating each cluster prototype against incoming samples through an optimal transportation mechanism. This approach specifically promotes each sub-memory buffer to retain data samples that exhibit significant discrepancies from the corresponding cluster prototype, thereby ensuring the preservation of semantically rich information. In addition, we propose a novel Divide-and-Conquer (DAC) approach that formulates the memory updating as an optimisation problem and divides it into several subproblems. As a result, the proposed DAC approach can solve these subproblems separately and thus can significantly reduce computations of the proposed memory updating process. We conduct a series of experiments across standard and imbalanced learning settings, and the empirical findings indicate that the proposed memory framework achieves state-of-the-art performance in both learning contexts.

Hongyu Rui, Yinzhe Wu, Fanwen Wang et al.

Magnetic Resonance Imaging (MRI) is critical for clinical diagnostics but is often limited by long acquisition times and low signal-to-noise ratios, especially in modalities like diffusion and functional MRI. The multi-contrast nature of MRI presents a valuable opportunity for cross-modal enhancement, where high-resolution (HR) modalities can serve as references to boost the quality of their low-resolution (LR) counterparts-motivating the development of Multi-Contrast Super-Resolution (MCSR) techniques. Prior work has shown that leveraging complementary contrasts can improve SR performance; however, effective feature extraction and fusion across modalities with varying resolutions remains a major challenge. Moreover, existing MCSR methods often assume fixed resolution settings and all require large, perfectly paired training datasets-conditions rarely met in real-world clinical environments. To address these challenges, we propose a novel Modular Multi-Contrast Super-Resolution (MCSR) framework that eliminates the need for paired training data and supports arbitrary upscaling. Our method decouples the MCSR task into two stages: (1) Unpaired Cross-Modal Synthesis (U-CMS), which translates a high-resolution reference modality into a synthesized version of the target contrast, and (2) Unsupervised Super-Resolution (U-SR), which reconstructs the final output using implicit neural representations (INRs) conditioned on spatial coordinates. This design enables scale-agnostic and anatomically faithful reconstruction by bridging un-paired cross-modal synthesis with unsupervised resolution enhancement. Experiments show that our method achieves superior performance at 4x and 8x upscaling, with improved fidelity and anatomical consistency over existing baselines. Our framework demonstrates strong potential for scalable, subject-specific, and data-efficient MCSR in real-world clinical settings.

Jiahao Huang, Fanwen Wang, Pedro F. Ferreira et al.

Cardiac diffusion tensor imaging (DTI) offers unique insights into cardiomyocyte arrangements, bridging the gap between microscopic and macroscopic cardiac function. However, its clinical utility is limited by technical challenges, including a low signal-to-noise ratio, aliasing artefacts, and the need for accurate quantitative fidelity. To address these limitations, we introduce RSFR (Reconstruction, Segmentation, Fusion & Refinement), a novel framework for cardiac diffusion-weighted image reconstruction. RSFR employs a coarse-to-fine strategy, leveraging zero-shot semantic priors via the Segment Anything Model and a robust Vision Mamba-based reconstruction backbone. Our framework integrates semantic features effectively to mitigate artefacts and enhance fidelity, achieving state-of-the-art reconstruction quality and accurate DT parameter estimation under high undersampling rates. Extensive experiments and ablation studies demonstrate the superior performance of RSFR compared to existing methods, highlighting its robustness, scalability, and potential for clinical translation in quantitative cardiac DTI.

Haosen Zhang, Jiahao Huang, Yinzhe Wu et al.

Magnetic Resonance Imaging (MRI) is crucial for clinical diagnostics but is hindered by prolonged scan times. Current deep learning models enhance MRI reconstruction but are often memory-intensive and unsuitable for resource-limited systems. This paper introduces a lightweight MRI reconstruction model leveraging Kronecker-Parameterized Hypercomplex Neural Networks to achieve high performance with reduced parameters. By integrating Kronecker-based modules, including Kronecker MLP, Kronecker Window Attention, and Kronecker Convolution, the proposed model efficiently extracts spatial features while preserving representational power. We introduce Kronecker U-Net and Kronecker SwinMR, which maintain high reconstruction quality with approximately 50% fewer parameters compared to existing models. Experimental evaluation on the FastMRI dataset demonstrates competitive PSNR, SSIM, and LPIPS metrics, even at high acceleration factors (8x and 16x), with no significant performance drop. Additionally, Kronecker variants exhibit superior generalization and reduced overfitting on limited datasets, facilitating efficient MRI reconstruction on hardware-constrained systems. This approach sets a new benchmark for parameter-efficient medical imaging models.

Zi Wang, Fanwen Wang, Chen Qin et al.

Cardiac magnetic resonance imaging (MRI) has emerged as a clinically gold-standard technique for diagnosing cardiac diseases, thanks to its ability to provide diverse information with multiple modalities and anatomical views. Accelerated cardiac MRI is highly expected to achieve time-efficient and patient-friendly imaging, and then advanced image reconstruction approaches are required to recover high-quality, clinically interpretable images from undersampled measurements. However, the lack of publicly available cardiac MRI k-space dataset in terms of both quantity and diversity has severely hindered substantial technological progress, particularly for data-driven artificial intelligence. Here, we provide a standardized, diverse, and high-quality CMRxRecon2024 dataset to facilitate the technical development, fair evaluation, and clinical transfer of cardiac MRI reconstruction approaches, towards promoting the universal frameworks that enable fast and robust reconstructions across different cardiac MRI protocols in clinical practice. To the best of our knowledge, the CMRxRecon2024 dataset is the largest and most protocal-diverse publicly available cardiac k-space dataset. It is acquired from 330 healthy volunteers, covering commonly used modalities, anatomical views, and acquisition trajectories in clinical cardiac MRI workflows. Besides, an open platform with tutorials, benchmarks, and data processing tools is provided to facilitate data usage, advanced method development, and fair performance evaluation.