Jiarun Liu

Weijian Huang, Cheng Li, Hong-Yu Zhou et al.

Recently, multi-modal vision-language foundation models have gained significant attention in the medical field. While these models offer great opportunities, they still face crucial challenges, such as the requirement for fine-grained knowledge understanding in computer-aided diagnosis and the capability of utilizing very limited or even no task-specific labeled data in real-world clinical applications. In this study, we present MaCo, a masked contrastive chest X-ray foundation model that tackles these challenges. MaCo explores masked contrastive learning to simultaneously achieve fine-grained image understanding and zero-shot learning for a variety of medical imaging tasks. It designs a correlation weighting mechanism to adjust the correlation between masked chest X-ray image patches and their corresponding reports, thereby enhancing the model's representation learning capabilities. To evaluate the performance of MaCo, we conducted extensive experiments using 6 well-known open-source X-ray datasets. The experimental results demonstrate the superiority of MaCo over 10 state-of-the-art approaches across tasks such as classification, segmentation, detection, and phrase grounding. These findings highlight the significant potential of MaCo in advancing a wide range of medical image analysis tasks.

Hao Yang, Weijian Huang, Jiarun Liu et al.

The ability to incrementally learn new classes from limited samples is crucial to the development of artificial intelligence systems for real clinical application. Although existing incremental learning techniques have attempted to address this issue, they still struggle with only few labeled data, particularly when the samples are from varied domains. In this paper, we explore the cross-domain few-shot incremental learning (CDFSCIL) problem. CDFSCIL requires models to learn new classes from very few labeled samples incrementally, and the new classes may be vastly different from the target space. To counteract this difficulty, we propose a cross-domain enhancement constraint and cross-domain data augmentation method. Experiments on MedMNIST show that the classification performance of this method is better than other similar incremental learning methods.

Jiarun Liu, Daguang Jiang, Yukun Yang et al.

Deep learning has made many remarkable achievements in many fields but suffers from noisy labels in datasets. The state-of-the-art learning with noisy label method Co-teaching and Co-teaching+ confronts the noisy label by mutual-information between dual-network. However, the dual network always tends to convergent which would weaken the dual-network mechanism to resist the noisy labels. In this paper, we proposed a noise-tolerant framework named MLC in an end-to-end manner. It adjusts the dual-network with divergent regularization to ensure the effectiveness of the mechanism. In addition, we correct the label distribution according to the agreement between dual-networks. The proposed method can utilize the noisy data to improve the accuracy, generalization, and robustness of the network. We test the proposed method on the simulate noisy dataset MNIST, CIFAR-10, and the real-world noisy dataset Clothing1M. The experimental result shows that our method outperforms the previous state-of-the-art method. Besides, our method is network-free thus it is applicable to many tasks. Our code can be found at https://github.com/JiarunLiu/MLC.

Cheng Li, Weijian Huang, Jiarun Liu et al.

The integration of medical imaging and clinical text has enabled the emergence of generalist artificial intelligence (AI) systems for healthcare. However, pervasive biases, such as imbalanced disease prevalence, skewed anatomical region distributions, heterogeneous imaging protocols, and demographic disparities, pose significant challenges to the fairness and reliability of vision-language systems in real-world clinical settings. Here we present BiasCareVL, a bias-aware multimodal learning framework that introduces bias control directly into model design, rather than treating it as a post hoc correction. BiasCareVL incorporates adaptive uncertainty modeling with optional human-in-the-loop refinement to regulate the influence of dominant data patterns and to promote equitable reasoning under distributional imbalance. Trained on 3.44 million samples spanning over 15 imaging modalities, the framework supports diverse clinical tasks, including visual question answering, disease classification, segmentation, and report generation within a unified representation space. Across eight public benchmarks covering dermatology, oncology, radiology, and pathology, BiasCareVL consistently outperforms 20 state-of-the-art methods, with pronounced gains in clinically challenging scenarios, including over 10% accuracy improvement in multi-class skin lesion diagnosis and more than 20% Dice improvement in small tumor segmentation. Furthermore, BiasCareVL achieves diagnostic performance exceeding human accuracy with substantially reduced time requirements when evaluated with board-certified radiologists. By open-sourcing BiasCareVL, we aim to promote a transparent, reproducible, and equitable future for AI in healthcare, paving the way for general-purpose, trustworthy, and clinically reliable AI systems.

Jiarun Liu, Wentao Hu, Chunhong Zhang

Large Language Models (LLMs) have emerged as promising agents for web navigation tasks, interpreting objectives and interacting with web pages. However, the efficiency of spliced prompts for such tasks remains underexplored. We introduces AllTogether, a standardized prompt template that enhances task context representation, thereby improving LLMs' performance in HTML-based web navigation. We evaluate the efficacy of this approach through prompt learning and instruction finetuning based on open-source Llama-2 and API-accessible GPT models. Our results reveal that models like GPT-4 outperform smaller models in web navigation tasks. Additionally, we find that the length of HTML snippet and history trajectory significantly influence performance, and prior step-by-step instructions prove less effective than real-time environmental feedback. Overall, we believe our work provides valuable insights for future research in LLM-driven web agents.

Weijian Huang, Cheng Li, Hong-Yu Zhou et al.

The development of medical vision-language foundation models has attracted significant attention in the field of medicine and healthcare due to their promising prospect in various clinical applications. While previous studies have commonly focused on feature learning at a single learning scale, investigation on integrating multi-scale information is lacking, which may hinder the potential for mutual reinforcement among these features. This paper aims to bridge this gap by proposing a method that effectively exploits multi-scale information to enhance the performance of medical foundation models. The proposed method simultaneously exploits features at the local, instance, modality and global aspects, facilitating comprehensive representation learning within the models. We evaluate the effectiveness of the proposed method on six open-source datasets across different clinical tasks, demonstrating its ability to enhance the performance of medical foundation models.

Jiarun Liu, Hao Yang, Hong-Yu Zhou et al.

Accurate medical image segmentation demands the integration of multi-scale information, spanning from local features to global dependencies. However, it is challenging for existing methods to model long-range global information, where convolutional neural networks (CNNs) are constrained by their local receptive fields, and vision transformers (ViTs) suffer from high quadratic complexity of their attention mechanism. Recently, Mamba-based models have gained great attention for their impressive ability in long sequence modeling. Several studies have demonstrated that these models can outperform popular vision models in various tasks, offering higher accuracy, lower memory consumption, and less computational burden. However, existing Mamba-based models are mostly trained from scratch and do not explore the power of pretraining, which has been proven to be quite effective for data-efficient medical image analysis. This paper introduces a novel Mamba-based model, Swin-UMamba, designed specifically for medical image segmentation tasks, leveraging the advantages of ImageNet-based pretraining. Our experimental results reveal the vital role of ImageNet-based training in enhancing the performance of Mamba-based models. Swin-UMamba demonstrates superior performance with a large margin compared to CNNs, ViTs, and latest Mamba-based models. Notably, on AbdomenMRI, Encoscopy, and Microscopy datasets, Swin-UMamba outperforms its closest counterpart U-Mamba_Enc by an average score of 2.72%.

Jiarun Liu, Shiyue Xu, Shangkun Liu et al.

Large Language Models are increasingly deployed as autonomous agents for complex real-world tasks, yet existing systems often focus on isolated improvements without a unifying design for robustness and adaptability. We propose a generalist agent architecture that integrates three core components: a collective multi-agent framework combining planning and execution agents with critic model voting, a hierarchical memory system spanning working, semantic, and procedural layers, and a refined tool suite for search, code execution, and multimodal parsing. Evaluated on a comprehensive benchmark, our framework consistently outperforms open-source baselines and approaches the performance of proprietary systems. These results demonstrate the importance of system-level integration and highlight a path toward scalable, resilient, and adaptive AI assistants capable of operating across diverse domains and tasks.

Jiarun Liu, Ruirui Li, Chuan Sun

With the development of deep learning, medical image classification has been significantly improved. However, deep learning requires massive data with labels. While labeling the samples by human experts is expensive and time-consuming, collecting labels from crowd-sourcing suffers from the noises which may degenerate the accuracy of classifiers. Therefore, approaches that can effectively handle label noises are highly desired. Unfortunately, recent progress on handling label noise in deep learning has gone largely unnoticed by the medical image. To fill the gap, this paper proposes a noise-tolerant medical image classification framework named Co-Correcting, which significantly improves classification accuracy and obtains more accurate labels through dual-network mutual learning, label probability estimation, and curriculum label correcting. On two representative medical image datasets and the MNIST dataset, we test six latest Learning-with-Noisy-Labels methods and conduct comparative studies. The experiments show that Co-Correcting achieves the best accuracy and generalization under different noise ratios in various tasks. Our project can be found at: https://github.com/JiarunLiu/Co-Correcting.

Jiarun Liu, Qifeng Chen, Yiru Zhao et al.

While visual-language models have profoundly linked features between texts and images, the incorporation of 3D modality data, such as point clouds and 3D Gaussians, further enables pretraining for 3D-related tasks, e.g., cross-modal retrieval, zero-shot classification, and scene recognition. As challenges remain in extracting 3D modal features and bridging the gap between different modalities, we propose TIGaussian, a framework that harnesses 3D Gaussian Splatting (3DGS) characteristics to strengthen cross-modality alignment through multi-branch 3DGS tokenizer and modality-specific 3D feature alignment strategies. Specifically, our multi-branch 3DGS tokenizer decouples the intrinsic properties of 3DGS structures into compact latent representations, enabling more generalizable feature extraction. To further bridge the modality gap, we develop a bidirectional cross-modal alignment strategies: a multi-view feature fusion mechanism that leverages diffusion priors to resolve perspective ambiguity in image-3D alignment, while a text-3D projection module adaptively maps 3D features to text embedding space for better text-3D alignment. Extensive experiments on various datasets demonstrate the state-of-the-art performance of TIGaussian in multiple tasks.

Jiarun Liu, Hong-Yu Zhou, Cheng Li et al.

Existing contrastive language-image pre-training aims to learn a joint representation by matching abundant image-text pairs. However, the number of image-text pairs in medical datasets is usually orders of magnitude smaller than that in natural datasets. Besides, medical image-text pairs often involve numerous complex fine-grained correspondences. This paper aims to enhance the data efficiency by introducing multiple-to-multiple local relationship modeling to capture denser supervisions. More specifically, we propose a Medical Language-Image Pre-training (MLIP) framework, which exploits the limited image-text medical data more efficiently through patch-sentence matching. Furthermore, we introduce a masked contrastive learning strategy with semantic integrity estimation to reduce redundancy in images while preserving the underlying semantics. Our evaluation results show that MLIP outperforms previous work in zero/few-shot classification and few-shot segmentation tasks by a large margin.

Hao Yang, Hong-Yu Zhou, Cheng Li et al.

Multimodal deep learning utilizing imaging and diagnostic reports has made impressive progress in the field of medical imaging diagnostics, demonstrating a particularly strong capability for auxiliary diagnosis in cases where sufficient annotation information is lacking. Nonetheless, localizing diseases accurately without detailed positional annotations remains a challenge. Although existing methods have attempted to utilize local information to achieve fine-grained semantic alignment, their capability in extracting the fine-grained semantics of the comprehensive context within reports is limited. To address this problem, a new method is introduced that takes full sentences from textual reports as the basic units for local semantic alignment. This approach combines chest X-ray images with their corresponding textual reports, performing contrastive learning at both global and local levels. The leading results obtained by this method on multiple datasets confirm its efficacy in the task of lesion localization.

Jiarun Liu, Jia Hao, Chunhong Zhang et al.

The rapid advancement of autonomous web navigation has significantly benefited from grounding pretrained Large Language Models (LLMs) as agents. However, current research has yet to fully leverage the redundancy of HTML elements for contrastive training. This paper introduces a novel approach to LLM-based web navigation tasks, called Web Element Preference Optimization (WEPO). WEPO utilizes unsupervised preference learning by sampling distance-based non-salient web elements as negative samples, optimizing maximum likelihood objective within Direct Preference Optimization (DPO). We evaluate WEPO on the Mind2Web benchmark and empirically demonstrate that WEPO aligns user high-level intent with output actions more effectively. The results show that our method achieved the state-of-the-art, with an improvement of 13.8% over WebAgent and 5.3% over the visual language model CogAgent baseline. Our findings underscore the potential of preference optimization to enhance web navigation and other web page based tasks, suggesting a promising direction for future research.

Dongning Song, Weijian Huang, Jiarun Liu et al.

Accurate segmentation of blood vessels is essential for various clinical assessments and postoperative analyses. However, the inherent challenges of vascular imaging, such as sparsity, fine granularity, low contrast, data distribution variability, and the critical need for preserving topological structure, making generalized vessel segmentation particularly complex. While specialized segmentation methods have been developed for specific anatomical regions, their over-reliance on tailored models hinders broader applicability and generalization. General-purpose segmentation models introduced in medical imaging often fail to address critical vascular characteristics, including the connectivity of segmentation results. To overcome these limitations, we propose an optimized vessel segmentation framework: a structure-agnostic approach incorporating small vessel enhancement and morphological correction for multi-modality vessel segmentation. To train and validate this framework, we compiled a comprehensive multi-modality dataset spanning 17 datasets and benchmarked our model against six SAM-based methods and 17 expert models. The results demonstrate that our approach achieves superior segmentation accuracy, generalization, and a 34.6% improvement in connectivity, underscoring its clinical potential. An ablation study further validates the effectiveness of the proposed improvements. We will release the code and dataset at github following the publication of this work.

Hao Yang, Hong-Yu Zhou, Jiarun Liu et al.

Existing deep learning models for defining pathology from clinical imaging data rely on expert annotations and lack generalization capabilities in open clinical environments. Here, we present a generalizable vision-language model for Annotation-Free pathology Localization (AFLoc). The core strength of AFLoc is extensive multi-level semantic structure-based contrastive learning, which comprehensively aligns multi-granularity medical concepts with abundant image features to adapt to the diverse expressions of pathologies without the reliance on expert image annotations. We conduct primary experiments on a dataset of 220K pairs of image-report chest X-ray images and perform validation across eight external datasets encompassing 34 types of chest pathologies. The results demonstrate that AFLoc outperforms state-of-the-art methods in both annotation-free localization and classification tasks. Additionally, we assess the generalizability of AFLoc on other modalities, including histopathology and retinal fundus images. We show that AFLoc exhibits robust generalization capabilities, even surpassing human benchmarks in localizing five different types of pathological images. These results highlight the potential of AFLoc in reducing annotation requirements and its applicability in complex clinical environments.

Xuanru Zhou, Jiarun Liu, Shoujun Yu et al.

In medical imaging, 4D MRI enables dynamic 3D visualization, yet the trade-off between spatial and temporal resolution requires prolonged scan time that can compromise temporal fidelity--especially during rapid, large-amplitude motion. Traditional approaches typically rely on registration-based interpolation to generate intermediate frames. However, these methods struggle with large deformations, resulting in misregistration, artifacts, and diminished spatial consistency. To address these challenges, we propose TSSC-Net, a novel framework that generates intermediate frames while preserving spatial consistency. To improve temporal fidelity under fast motion, our diffusion-based temporal super-resolution network generates intermediate frames using the start and end frames as key references, achieving 6x temporal super-resolution in a single inference step. Additionally, we introduce a novel tri-directional Mamba-based module that leverages long-range contextual information to effectively resolve spatial inconsistencies arising from cross-slice misalignment, thereby enhancing volumetric coherence and correcting cross-slice errors. Extensive experiments were performed on the public ACDC cardiac MRI dataset and a real-world dynamic 4D knee joint dataset. The results demonstrate that TSSC-Net can generate high-resolution dynamic MRI from fast-motion data while preserving structural fidelity and spatial consistency.

Jiarun Liu, Hong-Yu Zhou, Weijian Huang et al.

Scaling up model and data size have demonstrated impressive performance improvement over a wide range of tasks. Despite extensive studies on scaling behaviors for general-purpose tasks, medical images exhibit substantial differences from natural data. It remains unclear the key factors in developing medical vision foundation models at scale due to the absence of an extensive understanding of scaling behavior in the medical domain. In this paper, we explored the scaling behavior across model sizes, training algorithms, data sizes, and imaging modalities in developing scalable medical vision foundation models by self-supervised learning. To support scalable pretraining, we introduce BioVFM-21M, a large-scale biomedical image dataset encompassing a wide range of biomedical image modalities and anatomies. We observed that scaling up does provide benefits but varies across tasks. Additional analysis reveals several factors correlated with scaling benefits. Finally, we propose BioVFM, a large-scale medical vision foundation model pretrained on 21 million biomedical images, which outperforms the previous state-of-the-art foundation models across 12 medical benchmarks. Our results highlight that while scaling up is beneficial for pursuing better performance, task characteristics, data diversity, pretraining methods, and computational efficiency remain critical considerations for developing scalable medical foundation models.

Weijian Huang, Cheng Li, Hao Yang et al.

Recently, vision-language representation learning has made remarkable advancements in building up medical foundation models, holding immense potential for transforming the landscape of clinical research and medical care. The underlying hypothesis is that the rich knowledge embedded in radiology reports can effectively assist and guide the learning process, reducing the need for additional labels. However, these reports tend to be complex and sometimes even consist of redundant descriptions that make the representation learning too challenging to capture the key semantic information. This paper develops a novel iterative vision-language representation learning framework by proposing a key semantic knowledge-emphasized report refinement method. Particularly, raw radiology reports are refined to highlight the key information according to a constructed clinical dictionary and two model-optimized knowledge-enhancement metrics. The iterative framework is designed to progressively learn, starting from gaining a general understanding of the patient's condition based on raw reports and gradually refines and extracts critical information essential to the fine-grained analysis tasks. The effectiveness of the proposed framework is validated on various downstream medical image analysis tasks, including disease classification, region-of-interest segmentation, and phrase grounding. Our framework surpasses seven state-of-the-art methods in both fine-tuning and zero-shot settings, demonstrating its encouraging potential for different clinical applications.

Wentao Hu, Xiurong Jiang, Jiarun Liu et al.

In the field of few-shot learning (FSL), extensive research has focused on improving network structures and training strategies. However, the role of data processing modules has not been fully explored. Therefore, in this paper, we propose Meta-DM, a generalized data processing module for FSL problems based on diffusion models. Meta-DM is a simple yet effective module that can be easily integrated with existing FSL methods, leading to significant performance improvements in both supervised and unsupervised settings. We provide a theoretical analysis of Meta-DM and evaluate its performance on several algorithms. Our experiments show that combining Meta-DM with certain methods achieves state-of-the-art results.