Rongjun Ge

Yuting He, Guanyu Yang, Rongjun Ge et al.

Learning inter-image similarity is crucial for 3D medical images self-supervised pre-training, due to their sharing of numerous same semantic regions. However, the lack of the semantic prior in metrics and the semantic-independent variation in 3D medical images make it challenging to get a reliable measurement for the inter-image similarity, hindering the learning of consistent representation for same semantics. We investigate the challenging problem of this task, i.e., learning a consistent representation between images for a clustering effect of same semantic features. We propose a novel visual similarity learning paradigm, Geometric Visual Similarity Learning, which embeds the prior of topological invariance into the measurement of the inter-image similarity for consistent representation of semantic regions. To drive this paradigm, we further construct a novel geometric matching head, the Z-matching head, to collaboratively learn the global and local similarity of semantic regions, guiding the efficient representation learning for different scale-level inter-image semantic features. Our experiments demonstrate that the pre-training with our learning of inter-image similarity yields more powerful inner-scene, inter-scene, and global-local transferring ability on four challenging 3D medical image tasks. Our codes and pre-trained models will be publicly available on https://github.com/YutingHe-list/GVSL.

Xiaofei Chen, Yuting He, Cheng Xue et al.

The foundation models based on pre-training technology have significantly advanced artificial intelligence from theoretical to practical applications. These models have facilitated the feasibility of computer-aided diagnosis for widespread use. Medical contrastive vision-language pre-training, which does not require human annotations, is an effective approach for guiding representation learning using description information in diagnostic reports. However, the effectiveness of pre-training is limited by the large-scale semantic overlap and shifting problems in medical field. To address these issues, we propose the Knowledge-Boosting Contrastive Vision-Language Pre-training framework (KoBo), which integrates clinical knowledge into the learning of vision-language semantic consistency. The framework uses an unbiased, open-set sample-wise knowledge representation to measure negative sample noise and supplement the correspondence between vision-language mutual information and clinical knowledge. Extensive experiments validate the effect of our framework on eight tasks including classification, segmentation, retrieval, and semantic relatedness, achieving comparable or better performance with the zero-shot or few-shot settings. Our code is open on https://github.com/ChenXiaoFei-CS/KoBo.

Jindi Kong, Yuting He, Cong Xia et al.

Clinical MRI contrast acquisition suffers from inefficient information yield, which presents as a mismatch between the risky and costly acquisition protocol and the fixed and sparse acquisition sequence. Applying world models to simulate the contrast enhancement kinetics in the human body enables continuous contrast-free dynamics. However, the low temporal resolution in MRI acquisition restricts the training of world models, leading to a sparsely sampled dataset. Directly training a generative model to capture the kinetics leads to two limitations: (a) Due to the absence of data on missing time, the model tends to overfit to irrelevant features, leading to content distortion. (b) Due to the lack of continuous temporal supervision, the model fails to learn the continuous kinetics law over time, causing temporal discontinuities. For the first time, we propose MRI Contrast Enhancement Kinetics World model (MRI CEKWorld) with SpatioTemporal Consistency Learning (STCL). For (a), guided by the spatial law that patient-level structures remain consistent during enhancement, we propose Latent Alignment Learning (LAL) that constructs a patient-specific template to constrain contents to align with this template. For (b), guided by the temporal law that the kinetics follow a consistent smooth trend, we propose Latent Difference Learning (LDL) which extends the unobserved intervals by interpolation and constrains smooth variations in the latent space among interpolated sequences. Extensive experiments on two datasets show our MRI CEKWorld achieves better realistic contents and kinetics. Codes will be available at https://github.com/DD0922/MRI-Contrast-Enhancement-Kinetics-World-Model.

Liutao Yang, Zhongnian Li, Rongjun Ge et al.

Low-Dose Computed Tomography (LDCT) technique, which reduces the radiation harm to human bodies, is now attracting increasing interest in the medical imaging field. As the image quality is degraded by low dose radiation, LDCT exams require specialized reconstruction methods or denoising algorithms. However, most of the recent effective methods overlook the inner-structure of the original projection data (sinogram) which limits their denoising ability. The inner-structure of the sinogram represents special characteristics of the data in the sinogram domain. By maintaining this structure while denoising, the noise can be obviously restrained. Therefore, we propose an LDCT denoising network namely Sinogram Inner-Structure Transformer (SIST) to reduce the noise by utilizing the inner-structure in the sinogram domain. Specifically, we study the CT imaging mechanism and statistical characteristics of sinogram to design the sinogram inner-structure loss including the global and local inner-structure for restoring high-quality CT images. Besides, we propose a sinogram transformer module to better extract sinogram features. The transformer architecture using a self-attention mechanism can exploit interrelations between projections of different view angles, which achieves an outstanding performance in sinogram denoising. Furthermore, in order to improve the performance in the image domain, we propose the image reconstruction module to complementarily denoise both in the sinogram and image domain.

Yuxin Liu, Yiqing Dong, Wenxue Yu et al.

Medical image denoising (MID) lacks absolutely clean images for supervision, leading to a noisy reference problem that fundamentally limits denoising performance. Existing simulated-supervised discriminative learning (SimSDL) and simulated-supervised generative learning (SimSGL) treat noisy references as clean targets, causing suboptimal convergence or reference-biased learning, while self-supervised learning (SSL) imposes restrictive noise assumptions that are seldom satisfied in realistic MID scenarios. We propose \textbf{RelativeFlow}, a flow matching framework that learns from heterogeneous noisy references and drives inputs from arbitrary quality levels toward a unified high-quality target. RelativeFlow reformulates flow matching by decomposing the absolute noise-to-clean mapping into relative noisier-to-noisy mappings, and realizes this formulation through two key components: 1) consistent transport (CoT), a displacement map that constrains relative flows to be components of and progressively compose a unified absolute flow, and 2) simulation-based velocity field (SVF), which constructs a learnable velocity field using modality-specific degradation operators to support different medical imaging modalities. Extensive experiments on Computed Tomography (CT) and Magnetic Resonance (MR) denoising demonstrate that RelativeFlow significantly outperforms existing methods, taming MID with noisy references.

Rongjun Ge, Yuxin Liu, Zhan Wu et al.

Non-ideal measurement computed tomography (NICT) employs suboptimal imaging protocols to expand CT applications. However, the resulting trade-offs degrade image quality, limiting clinical acceptability. Although deep learning methods have been used to enhance NICT images, their reliance on large training datasets and limited generalizability across diverse settings hinder practical use. We propose the multi-scale integrated Transformer AMPlifier (TAMP), the first imaging foundation model for universal NICT enhancement. Pre-trained on 10.8 million physics-driven simulated NICT images, TAMP generalizes effectively across various NICT settings, defect degrees, and body regions. Moreover, a parameter-efficient fine-tuning strategy enables TAMP to adapt to specific clinical scenarios using only few slices. Extensive experiments, including radiologists and real-world validations, demonstrate that TAMP consistently improves image quality and clinical acceptability, underscoring its significant potential to advance CT imaging and broaden NICT applications in clinical practice.

Jianwei Wang, Qing Wang, Menglan Ruan et al.

Generating BOLD images from T1w images offers a promising solution for recovering missing BOLD information and enabling downstream tasks when BOLD images are corrupted or unavailable. Motivated by this, we propose DINO-BOLDNet, a DINOv3-guided multi-slice attention framework that integrates a frozen self-supervised DINOv3 encoder with a lightweight trainable decoder. The model uses DINOv3 to extract within-slice structural representations, and a separate slice-attention module to fuse contextual information across neighboring slices. A multi-scale generation decoder then restores fine-grained functional contrast, while a DINO-based perceptual loss encourages structural and textural consistency between predictions and ground-truth BOLD in the transformer feature space. Experiments on a clinical dataset of 248 subjects show that DINO-BOLDNet surpasses a conditional GAN baseline in both PSNR and MS-SSIM. To our knowledge, this is the first framework capable of generating mean BOLD images directly from T1w images, highlighting the potential of self-supervised transformer guidance for structural-to-functional mapping.

Yuting He, Boyu Wang, Rongjun Ge et al.

Dense contrastive representation learning (DCRL) has greatly improved the learning efficiency for image-dense prediction tasks, showing its great potential to reduce the large costs of medical image collection and dense annotation. However, the properties of medical images make unreliable correspondence discovery, bringing an open problem of large-scale false positive and negative (FP&N) pairs in DCRL. In this paper, we propose GEoMetric vIsual deNse sImilarity (GEMINI) learning which embeds the homeomorphism prior to DCRL and enables a reliable correspondence discovery for effective dense contrast. We propose a deformable homeomorphism learning (DHL) which models the homeomorphism of medical images and learns to estimate a deformable mapping to predict the pixels' correspondence under topological preservation. It effectively reduces the searching space of pairing and drives an implicit and soft learning of negative pairs via a gradient. We also propose a geometric semantic similarity (GSS) which extracts semantic information in features to measure the alignment degree for the correspondence learning. It will promote the learning efficiency and performance of deformation, constructing positive pairs reliably. We implement two practical variants on two typical representation learning tasks in our experiments. Our promising results on seven datasets which outperform the existing methods show our great superiority. We will release our code on a companion link: https://github.com/YutingHe-list/GEMINI.

Tuo Liu, Qinghan Yang, Yu Zhang et al.

Left ventricular (LV) indicator measurements following clinical echocardiog-raphy guidelines are important for diagnosing cardiovascular disease. Alt-hough existing algorithms have explored automated LV quantification, they can struggle to capture generic visual representations due to the normally small training datasets. Therefore, it is necessary to introduce vision founda-tional models (VFM) with abundant knowledge. However, VFMs represented by the segment anything model (SAM) are usually suitable for segmentation but incapable of identifying key anatomical points, which are critical in LV indicator measurements. In this paper, we propose a novel framework named AutoSAME, combining the powerful visual understanding of SAM with seg-mentation and landmark localization tasks simultaneously. Consequently, the framework mimics the operation of cardiac sonographers, achieving LV indi-cator measurements consistent with clinical guidelines. We further present fil-tered cross-branch attention (FCBA) in AutoSAME, which leverages relatively comprehensive features in the segmentation to enhance the heatmap regression (HR) of key points from the frequency domain perspective, optimizing the vis-ual representation learned by the latter. Moreover, we propose spatial-guided prompt alignment (SGPA) to automatically generate prompt embeddings guid-ed by spatial properties of LV, thereby improving the accuracy of dense pre-dictions by prior spatial knowledge. The extensive experiments on an echocar-diography dataset demonstrate the efficiency of each design and the superiori-ty of our AutoSAME in LV segmentation, landmark localization, and indicator measurements. The code will be available at https://github.com/QC-LIU-1997/AutoSAME.

Kang Wang, Chen Qin, Zhang Shi et al.

Deep learning models have achieved state-of-the-art performance in automated Cardiac Magnetic Resonance (CMR) analysis. However, the efficacy of these models is highly dependent on the availability of high-quality, artifact-free images. In clinical practice, CMR acquisitions are frequently degraded by respiratory motion, yet the robustness of deep learning models against such artifacts remains an underexplored problem. To promote research in this domain, we organized the MICCAI CMRxMotion challenge. We curated and publicly released a dataset of 320 CMR cine series from 40 healthy volunteers who performed specific breathing protocols to induce a controlled spectrum of motion artifacts. The challenge comprised two tasks: 1) automated image quality assessment to classify images based on motion severity, and 2) robust myocardial segmentation in the presence of motion artifacts. A total of 22 algorithms were submitted and evaluated on the two designated tasks. This paper presents a comprehensive overview of the challenge design and dataset, reports the evaluation results for the top-performing methods, and further investigates the impact of motion artifacts on five clinically relevant biomarkers. All resources and code are publicly available at: https://github.com/CMRxMotion

Anthony Zhang, Mahmut Gokmen, Dennis Hein et al.

The Poisson Flow Consistency Model (PFCM) is a consistency-style model based on the robust Poisson Flow Generative Model++ (PFGM++) which has achieved success in unconditional image generation and CT image denoising. Yet the PFCM can only be trained in distillation which limits the potential of the PFCM in many data modalities. The objective of this research was to create a method to train the PFCM in isolation called Poisson Flow Consistency Training (PFCT). The perturbation kernel was leveraged to remove the pretrained PFGM++, and the sinusoidal discretization schedule and Beta noise distribution were introduced in order to facilitate adaptability and improve sample quality. The model was applied to the task of low dose computed tomography image denoising and improved the low dose image in terms of LPIPS and SSIM. It also displayed similar denoising effectiveness as models like the Consistency Model. PFCT is established as a valid method of training the PFCM from its effectiveness in denoising CT images, showing potential with competitive results to other generative models. Further study is needed in the precise optimization of PFCT and in its applicability to other generative modeling tasks. The framework of PFCT creates more flexibility for the ways in which a PFCM can be created and can be applied to the field of generative modeling.

Ruiyi Li, Yuting He, Rongjun Ge et al.

Domain adaptation (DA) for cardiac ultrasound image segmentation is clinically significant and valuable. However, previous domain adaptation methods are prone to be affected by the incomplete pseudo-label and low-quality target to source images. Human-centric domain adaptation has great advantages of human cognitive guidance to help model adapt to target domain and reduce reliance on labels. Doctor gaze trajectories contains a large amount of cross-domain human guidance. To leverage gaze information and human cognition for guiding domain adaptation, we propose gaze-assisted human-centric domain adaptation (GAHCDA), which reliably guides the domain adaptation of cardiac ultrasound images. GAHCDA includes following modules: (1) Gaze Augment Alignment (GAA): GAA enables the model to obtain human cognition general features to recognize segmentation target in different domain of cardiac ultrasound images like humans. (2) Gaze Balance Loss (GBL): GBL fused gaze heatmap with outputs which makes the segmentation result structurally closer to the target domain. The experimental results illustrate that our proposed framework is able to segment cardiac ultrasound images more effectively in the target domain than GAN-based methods and other self-train based methods, showing great potential in clinical application.

Yuting He, Rongjun Ge, Xiaoming Qi et al.

3D complete renal structures(CRS) segmentation targets on segmenting the kidneys, tumors, renal arteries and veins in one inference. Once successful, it will provide preoperative plans and intraoperative guidance for laparoscopic partial nephrectomy(LPN), playing a key role in the renal cancer treatment. However, no success has been reported in 3D CRS segmentation due to the complex shapes of renal structures, low contrast and large anatomical variation. In this study, we utilize the adversarial ensemble learning and propose Ensemble Multi-condition GAN(EnMcGAN) for 3D CRS segmentation for the first time. Its contribution is three-fold. 1)Inspired by windowing, we propose the multi-windowing committee which divides CTA image into multiple narrow windows with different window centers and widths enhancing the contrast for salient boundaries and soft tissues. And then, it builds an ensemble segmentation model on these narrow windows to fuse the segmentation superiorities and improve whole segmentation quality. 2)We propose the multi-condition GAN which equips the segmentation model with multiple discriminators to encourage the segmented structures meeting their real shape conditions, thus improving the shape feature extraction ability. 3)We propose the adversarial weighted ensemble module which uses the trained discriminators to evaluate the quality of segmented structures, and normalizes these evaluation scores for the ensemble weights directed at the input image, thus enhancing the ensemble results. 122 patients are enrolled in this study and the mean Dice coefficient of the renal structures achieves 84.6%. Extensive experiments with promising results on renal structures reveal powerful segmentation accuracy and great clinical significance in renal cancer treatment.