Mengye Lyu

Shoujin Huang, Guanxiong Luo, Yunlin Zhao et al.

Simultaneous multislice (SMS) imaging is a powerful technique for accelerating magnetic resonance imaging (MRI) acquisitions. However, SMS reconstruction remains challenging due to complex signal interactions between and within the excited slices. In this study, we introduce ROGER, a robust SMS MRI reconstruction method based on deep generative priors. Utilizing denoising diffusion probabilistic models (DDPM), ROGER begins with Gaussian noise and gradually recovers individual slices through reverse diffusion iterations while enforcing data consistency from measured k-space data within the readout concatenation framework. The posterior sampling procedure is designed such that the DDPM training can be performed on single-slice images without requiring modifications for SMS tasks. Additionally, our method incorporates a low-frequency enhancement (LFE) module to address the practical issue that SMS-accelerated fast spin echo (FSE) and echo planar imaging (EPI) sequences cannot easily embed fully-sampled autocalibration signals. Extensive experiments on both retrospectively and prospectively accelerated datasets demonstrate that ROGER consistently outperforms existing methods, enhancing both anatomical and functional imaging with strong out-of-distribution generalization. The source code and sample data for ROGER are available at https://github.com/Solor-pikachu/ROGER.

Asbjørn Munk, Stefano Cerri, Vardan Nersesjan et al.

Clinical deployment of automated brain MRI analysis faces a fundamental challenge: clinical data is heterogeneous and noisy, and high-quality labels are prohibitively costly to obtain. Self-supervised learning (SSL) can address this by leveraging the vast amounts of unlabeled data produced in clinical workflows to train robust \textit{foundation models} that adapt out-of-domain with minimal supervision. However, the development of foundation models for brain MRI has been limited by small pretraining datasets and in-domain benchmarking focused on high-quality, research-grade data. To address this gap, we organized the FOMO25 challenge as a satellite event at MICCAI 2025. FOMO25 provided participants with a large pretraining dataset, FOMO60K, and evaluated models on data sourced directly from clinical workflows in few-shot and out-of-domain settings. Tasks covered infarct classification, meningioma segmentation, and brain age regression, and considered both models trained on FOMO60K (method track) and any data (open track). Nineteen foundation models from sixteen teams were evaluated using a standardized containerized pipeline. Results show that (a) self-supervised pretraining improves generalization on clinical data under domain shift, with the strongest models trained \textit{out-of-domain} surpassing supervised baselines trained \textit{in-domain}. (b) No single pretraining objective benefits all tasks: MAE favors segmentation, hybrid reconstruction-contrastive objectives favor classification, and (c) strong performance was achieved by small pretrained models, and improvements from scaling model size and training duration did not yield reliable benefits.

Shoujin Huang, Guanxiong Luo, Xi Wang et al.

In general, diffusion model-based MRI reconstruction methods incrementally remove artificially added noise while imposing data consistency to reconstruct the underlying images. However, real-world MRI acquisitions already contain inherent noise due to thermal fluctuations. This phenomenon is particularly notable when using ultra-fast, high-resolution imaging sequences for advanced research, or using low-field systems favored by low- and middle-income countries. These common scenarios can lead to sub-optimal performance or complete failure of existing diffusion model-based reconstruction techniques. Specifically, as the artificially added noise is gradually removed, the inherent MRI noise becomes increasingly pronounced, making the actual noise level inconsistent with the predefined denoising schedule and consequently inaccurate image reconstruction. To tackle this problem, we propose a posterior sampling strategy with a novel NoIse Level Adaptive Data Consistency (Nila-DC) operation. Extensive experiments are conducted on two public datasets and an in-house clinical dataset with field strength ranging from 0.3T to 3T, showing that our method surpasses the state-of-the-art MRI reconstruction methods, and is highly robust against various noise levels. The code for Nila is available at https://github.com/Solor-pikachu/Nila.

Jie Xiao, Mengye Lyu, Shaojun Liu

MIDOG 2025 Track 1 requires mitosis detection in whole-slideimages (WSIs) containing non-tumor, inflamed, and necrotic re-gions. Due to the complicated and heterogeneous context, aswell as possible artifacts, there are often false positives and falsenegatives, thus degrading the detection F1-score. To addressthis problem, we propose a two-stage framework. Firstly, an im-proved YOLO11x, integrated with EMA attention and LSConv,is employed to generate mitosis candidates. We use a low confi-dence threshold to generate as many proposals as possible, en-suring the detection recall. Then, a ConvNeXt-Tiny classifieris employed to filter out the false positives, ensuring the detec-tion precision. Consequently, the proposed two-stage frame-work can generate a high detection F1-score. Evaluated on afused dataset comprising MIDOG++, MITOS_WSI_CCMCT,and MITOS_WSI_CMC, our framework achieves an F1-scoreof 0.882, which is 0.035 higher than the single-stage YOLO11xbaseline. This performance gain is produced by a significantprecision improvement, from 0.762 to 0.839, and a comparablerecall. On the MIDOG 2025 Track 1 preliminary test set, thealgorithm scores an F1 score of 0.7587. The code is available athttps://github.com/xxiao0304/MIDOG-2025-Track-1-of-SZTU.

Xinxian Fan, Mengye Lyu

This study explores the use of text-prompted MRI image generation with the Stable Diffusion (SD) model to address challenges in acquiring real MRI datasets, such as high costs, limited rare case samples, and privacy concerns. The SD model, pre-trained on natural images, was fine-tuned using the 3T fastMRI dataset and the 0.3T M4Raw dataset, with the goal of generating brain T1, T2, and FLAIR images across different magnetic field strengths. The performance of the fine-tuned model was evaluated using quantitative metrics,including Fréchet Inception Distance (FID) and Multi-Scale Structural Similarity (MS-SSIM), showing improvements in image quality and semantic consistency with the text prompts. To further evaluate the model's potential, a simple classification task was carried out using a small 0.35T MRI dataset, demonstrating that the synthetic images generated by the fine-tuned SD model can effectively augment training datasets and improve the performance of MRI constrast classification tasks. Overall, our findings suggest that text-prompted MRI image generation is feasible and can serve as a useful tool for medical AI applications.

Xingjian Tang, Jingwei Guan, Linge Li et al.

Diffusion models, as powerful generative models, have found a wide range of applications and shown great potential in solving image reconstruction problems. Some works attempted to solve MRI reconstruction with diffusion models, but these methods operate directly in pixel space, leading to higher computational costs for optimization and inference. Latent diffusion models, pre-trained on natural images with rich visual priors, are expected to solve the high computational cost problem in MRI reconstruction by operating in a lower-dimensional latent space. However, direct application to MRI reconstruction faces three key challenges: (1) absence of explicit control mechanisms for medical fidelity, (2) domain gap between natural images and MR physics, and (3) undefined data consistency in latent space. To address these challenges, a novel Latent Diffusion Prior-based undersampled MRI reconstruction (LDPM) method is proposed. Our LDPM framework addresses these challenges by: (1) a sketch-guided pipeline with a two-step reconstruction strategy, which balances perceptual quality and anatomical fidelity, (2) an MRI-optimized VAE (MR-VAE), which achieves an improvement of approximately 3.92 dB in PSNR for undersampled MRI reconstruction compared to that with SD-VAE \cite{sd}, and (3) Dual-Stage Sampler, a modified version of spaced DDPM sampler, which enforces high-fidelity reconstruction in the latent space. Experiments on the fastMRI dataset\cite{fastmri} demonstrate the state-of-the-art performance of the proposed method and its robustness across various scenarios. The effectiveness of each module is also verified through ablation experiments.