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Selected Publications

* indicates authors with equal contributions. indicates the corresponding author or project lead.

Journal

1. 

   Unlocking the Potential of Weakly Labeled Data: A Co-Evolutionary Learning Framework for Abnormality Detection and Report Generation
   Jinghan Sun*, Dong Wei*, Zhe Xu, Donghuan Lu, Hong Liu, Hong Wang, Sotirios A. Tsaftaris, Steven McDonagh, Yefeng Zheng, Liansheng Wang.
   IEEE Transactions on Medical Imaging (TMI), 2024.
   (IF: 8.9, JCR-Q1) [arxiv, code]
2. 

   Separated Collaborative Learning for Semi-supervised Prostate Segmentation with Multi-site Heterogeneous Unlabeled MRI Data
   Zhe Xu, Donghuan Lu, Jie Luo, Yefeng Zheng, Raymond Tong.
   Medical Image Analysis (MedIA), 2024.
   (IF: 10.9, JCR-Q1)
3. 

   Ambiguity-selective Consistency Regularization for Mean-Teacher Semi-supervised Medical Image Segmentation
   Zhe Xu, Yixin Wang, Donghuan Lu, Xiangde Luo, Jiangpeng Yan, Yefeng Zheng, Raymond Tong.
   Medical Image Analysis (MedIA), 2023.
   (IF: 10.9, JCR-Q1) [code]
4. 

   Anti-interference from Noisy Labels: Mean-Teacher-assisted Confident Learning for Medical Image Segmentation
   Zhe Xu, Donghuan Lu, Jie Luo, Yixin Wang, Jiangpeng Yan, Kai Ma, Yefeng Zheng, Raymond Tong.
   IEEE Transactions on Medical Imaging (TMI), 2022.
   (IF: 11.037, JCR-Q1) [code, Part of DLMA Tutorial at TUM]
5. 

   All-Around Real Label Supervision: Cyclic Prototype Consistency Learning for Semi-supervised Medical Image Segmentation
   Zhe Xu, Yixin Wang, Donghuan Lu, Lequan Yu, Jiangpeng Yan, Jie Luo, Kai Ma, Yefeng Zheng, Raymond Kai-yu Tong.
   IEEE Journal of Biomedical and Health Informatics (J-BHI), 2022.
   (IF: 7.021, JCR-Q1) [code]
6. 

   Trust It or Not: Confidence-Guided Automatic Radiology Report Generation
   Yixin Wang*, Zihao Lin*, Zhe Xu, Haoyu Dong, Jiang Tian, Jie Luo, Zhongchao Shi, Lifu Huang, Yang Zhang, Jianping Fan, Zhiqiang He. (* equal contribution)
   Neurocomputing, 2024.
   (IF: 6.0, JCR-Q1)
7. 

   Learn2Reg: Comprehensive Multi-task Medical Image Registration Challenge, Dataset and Evaluation in the Era of Deep Learning
   Wentao Pan, Zhe Xu (ADLReg | THU Team)

   Full Author List: Alessa Hering, Lasse Hansen, Tony C. W. Mok, Albert C. S. Chung, Hanna Siebert, Stephanie Häger, Annkristin Lange, Sven Kuckertz, Stefan Heldmann, Wei Shao, Sulaiman Vesal, Mirabela Rusu, Geoffrey Sonn, Théo Estienne, Maria Vakalopoulou, Luyi Han, Yunzhi Huang, Pew-Thian Yap, Mikael Brudfors, Yaël Balbastre, Samuel Joutard, Marc Modat, Gal Lifshitz, Dan Raviv, Jinxin Lv, Qiang Li, Vincent Jaouen, Dimitris Visvikis, Constance Fourcade, Mathieu Rubeaux, Wentao Pan, Zhe Xu, Bailiang Jian, Francesca De Benetti, Marek Wodzinski, Niklas Gunnarsson, Jens Sjölund, Daniel Grzech, Huaqi Qiu, Zeju Li, Alexander Thorley, Jinming Duan, Christoph Großbröhmer, Andrew Hoopes, Ingerid Reinertsen, Yiming Xiao, Bennett Landman, Yuankai Huo, Keelin Murphy, Nikolas Lessmann, Bram van Ginneken, Adrian V. Dalca, Mattias P. Heinrich

   IEEE Transactions on Medical Imaging (TMI), 2022.
   (IF: 11.037, JCR-Q1) [page, our code]

Conference

1. 

   MMedAgent: Learning to Use Medical Tools with Multi-modal Agent
   Binxu Li, Tiankai Yan, Yuanting Pan, Jie Luo, Ruiyang Ji, Jiayuan Ding, Zhe Xu, Shilong Liu, Haoyu Dong, Zihao Lin, Yixin Wang.
   Empirical Methods in Natural Language Processing (EMNLP), 2024.
   [code, demo, Press-1, Press-2, Recs.: Autonomous Agents, Tool Learning]
2. 

   FM-ABS: Promptable Foundation Model Drives Active Barely Supervised Learning for 3D Medical Image Segmentation
   Zhe Xu, Cheng Chen, Donghuan Lu, Jinghan Sun, Dong Wei, Yefeng Zheng, Quanzheng Li, Raymond Tong.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2024.
   [code]
3. 

   Few Slices Suffice: Multi-Faceted Consistency Learning with Active Cross-Annotation for Barely-supervised 3D Medical Image Segmentation
   Xinyao (Yoyo) Wu*, Zhe Xu*, Raymond Tong.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2024.
   (Oral, Young Scientist Award Finalist)
4. 

   Diversified and Personalized Multi-rater Medical Image Segmentation
   Yicheng Wu*, Xiangde Luo*, Zhe Xu, Xiaoqing Guo, Lie Ju, Zongyuan Ge, Wenjun Liao, Jianfei Cai.
   IEEE Conference on Computer Vision and Pattern Recognition (CVPR), 2024.
   (Highlight) [code]
5. 

   Category-Level Regularized Unlabeled-to-Labeled Learning for Semi-supervised Prostate Segmentation with Multi-site Unlabeled Data
   Zhe Xu, Donghuan Lu, Jiangpeng Yan, Jinghan Sun, Jie Luo, Dong Wei, Sarah Frisken, Quanzheng Li, Yefeng Zheng, Raymond Tong.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2023.
   (Oral, Early accept, Young Scientist Award Finalist)
6. 

   Towards Expert-Amateur Collaboration: Prototypical Label Isolation Learning for Left Atrium Segmentation with Mixed-Quality Labels
   Zhe Xu, Jiangpeng Yan, Donghuan Lu, Yixin Wang, Jie Luo, Yefeng Zheng, Raymond Tong.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2023. [code]
7. 

   You've Got Two Teachers: Co-evolutionary Image and Report Distillation for Semi-supervised Anatomical Abnormality Detection in Chest X-ray
   Jinghan Sun*, Dong Wei*, Zhe Xu, Donghuan Lu, Hong Liu, Liansheng Wang, Yefeng Zheng.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2023.
   (Early accept) [code]
8. 

   Weakly Supervised Medical Image Segmentation via Superpixel-guided Scribble Walking and Class-wise Contrastive Regularization
   Meng Zhou*, Zhe Xu*, Kang Zhou, Raymond Tong.
   Medical Image Computing and Computer Assisted Interventions (MICCAI), 2023.
   [code]
9. 

   Human-machine Interactive Tissue Prototype Learning for Label-efficient Histopathology Image Segmentation
   Wentao Pan*, Jiangpeng Yan*, Hanbo Chen*, Jiawei Yang, Zhe Xu, Xiu Li, Jianhua Yao.
   Information Processing in Medical Imaging (IPMI), 2023.
   (Oral) [code]
10. 

    Double-Uncertainty Guided Spatial and Temporal Consistency Regularization Weighting for Learning-based Abdominal Registration
    Zhe Xu, Jie Luo, Donghuan Lu, Jiangpeng Yan, Sarah Frisken, Jayender Jagadeesan, William Wells III, Xiu Li, Yefeng Zheng, Raymond Tong.
    Medical Image Computing and Computer Assisted Interventions (MICCAI), 2022.
    (Early accept)
11. 

    Denoising for Relaxing: Unsupervised Domain Adaptive Fundus Image Segmentation without Source Data
    Zhe Xu, Donghuan Lu, Yixin Wang, Jie Luo, Dong Wei, Yefeng Zheng, Raymond Tong.
    Medical Image Computing and Computer Assisted Interventions (MICCAI), 2022.
    (Early accept)
12. 

    On the Dataset Quality Control for Image Registration Evaluation
    Jie Luo, Guangshen Ma, Nazim Haouchine, Zhe Xu, Parikshit Juvekar, Yixin Wang, Yiming Xiao, Alexandra Golby, Patrick Codd, William Wells, Sarah Frisken.
    Medical Image Computing and Computer Assisted Interventions (MICCAI), 2022.
    
13. 

    Cross-domain Few-shot Learning for Rare-Disease Skin Lesion Segmentation
    Yixin Wang, Zhe Xu, Jiang Tian, Jie Luo, Zhongchao Shi, Yang Zhang, Jianping Fan, Zhiqiang He.
    IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), 2022.
14. 

    Hierarchical Attention Guided Framework for Multi-resolution Collaborative Whole Slide Image Segmentation
    Jiangpeng Yan, Hanbo Chen, Kang Wang, Yan Ji, Yuyao Zhu, Jingjing Li, Dong Xie, Zhe Xu, Junzhou Huang, Shuqun Cheng, Xiu Li, Jianhua Yao.
    Medical Image Computing and Computer Assisted Interventions (MICCAI), 2021.
    (Early accept)
15. 

    Unsupervised Multimodal Image Registration with Adaptative Gradient Guidance
    Zhe Xu, Jiangpeng Yan, Jie Luo, Xiu Li, Jayender Jagadeesan.
    IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), 2021.
16. 

    Adversarial Uni-and Multi-modal Stream Networks for Multimodal Image Registration
    Zhe Xu, Jie Luo, Jiangpeng Yan, Ritvik Pulya, Xiu Li, William Wells III, Jayender Jagadeesan.
    Medical Image Computing and Computer Assisted Interventions (MICCAI), 2020.
    (Oral) [Nice Follow-up: MedIA@JHU, DDMReg(TMI)@Harvard]

Selected Preprints

1. Conservative-Radical Complementary Learning for Class-incremental Medical Image Analysis with Pre-trained Foundation Models
   Xinyao (Yoyo) Wu, Zhe Xu*, Donghuan Lu, Jinghan Sun, Hong Liu, Sadia Shakil, Jiawei Ma, Yefeng Zheng, Raymond Tong.
   Under Review, 2025.
2. RRG-DPO: Direct Preference Optimization for Clinically Accurate Radiology Report Generation
   Hong Liu, Dong Wei, Zhe Xu, Xian Wu, Yefeng Zheng, Liansheng Wang.
   Under Review, 2025.
3. Improving Instance-based Whole Slide Image Classification with Logit-based Log-sum-exp Aggregator and Contextual Awareness
   Wentao Pan, Donghuan Lu, Jiangpeng Yan, Zhe Xu, Conghao Xiong, Dong Wei, Xian Wu, Yixuan Yuan.
   Under Review, 2025.
4. Collect Vascular Specimens in One Cabinet: A Hierarchical Prompt-Guided Universal Model for 3D Vascular Segmentation
   Yinuo Wang, Cai Meng, Zhe Xu.
   Under Review, 2025.
5. GM-ABS: Promptable Generalist Model Drives Active Barely Supervised Training in Specialist Model for 3D Medical Image Segmentation
   Zhe Xu, Cheng Chen, Donghuan Lu, Jinghan Sun, Dong Wei, Xian Wu, Yefeng Zheng, Quanzheng Li, Raymond Tong.
   Under Review, 2025.
6. FedSemiDG: Domain Generalized Federated Semi-supervised Medical Image Segmentation
   Zhipeng Deng, Zhe Xu, Tsuyoshi Isshiki, Yefeng Zheng.
   Under Review, 2025.
7. Exploiting Image-Report Differences and Inter-View Commonality for Diffusion-based Multi-View Chest X-ray Image Generation
   Jinghan Sun, Dong Wei, Yanfeng Lia, Steven McDonagh, Sotirios A. Tsaftaris, Yuyang Xue, Zhe Xu, Donghuan Lu, Hong Wang, Xian Wu, Yefeng Zheng, Liansheng Wang.
   Under Review, 2025.
8. Semi-supervised Semantic Segmentation Meets Masked Modeling: Fine-grained Locality Learning Matters in Consistency Regularization
   Wentao Pan, Zhe Xu, Jiangpeng Yan, Zihan Wu, Raymond Tong, Jianhua Yao.
   Under Review, 2023.
9. Seeking Common Ground While Reserving Differences: Multiple Anatomy Collaborative Framework for Undersampled MRI Reconstruction
   Jiangpeng Yan, Chenghui Yu, Hanbo Chen, Zhe Xu, Junzhou Huang, Xiu Li, Jianhua Yao.
   Under Review, 2023.