Global consistency spatial model for fiber orientation distribution estimation. - Ye Wu 001; Yuanjing Feng; Fei Li; Carl-Fredrik Westin (ISBI, 2015)

Sparse deconvolution of higher order tensor for fiber orientation distribution estimation. - Yuanjing Feng; Ye Wu 001; Yogesh Rathi; Carl-Fredrik Westin (Artif. Intell. Medicine, 2015)

Penalized Geodesic Tractography for Mitigating Gyral Bias. - Ye Wu 001; Yuanjing Feng; Dinggang Shen; Pew-Thian Yap (MICCAI (3), 2018)

A Multi-Tissue Global Estimation Framework for Asymmetric Fiber Orientation Distributions. - Ye Wu 001; Yuanjing Feng; Dinggang Shen; Pew-Thian Yap (MICCAI (3), 2018)

Investigation into local white matter abnormality in emotional processing and sensorimotor areas using an automatically annotated fiber clustering in major depressive disorder. - Ye Wu 001; Fan Zhang 013; Nikos Makris; Yuping Ning; Isaiah Norton; Shenglin She; Hongjun Peng; Yogesh Rathi; Yuanjing Feng; Huawang Wu; Lauren J. O'Donnell (NeuroImage, 2018)

An anatomically curated fiber clustering white matter atlas for consistent white matter tract parcellation across the lifespan. - Fan Zhang 013; Ye Wu 001; Isaiah Norton; Laura Rigolo; Yogesh Rathi; Nikos Makris; Lauren J. O'Donnell (NeuroImage, 2018)

Asymmetry Spectrum Imaging for Baby Diffusion Tractography. - Ye Wu 001; Weili Lin; Dinggang Shen; Pew-Thian Yap (IPMI, 2019)

Probing Brain Micro-architecture by Orientation Distribution Invariant Identification of Diffusion Compartments. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Geng Chen 001; Kim-Han Thung; Haiyong Wu; Weili Lin; Dinggang Shen; Pew-Thian Yap (MICCAI (3), 2019)

Characterizing Non-Gaussian Diffusion in Heterogeneously Oriented Tissue Microenvironments. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Kim-Han Thung; Geng Chen 001; Weili Lin; Dinggang Shen; Pew-Thian Yap (MICCAI (3), 2019)

Early Development of Infant Brain Complex Network. - Weixiong Jiang; Han Zhang 002; Li-Ming Hsu; Dan Hu; Guoshi Li; Ye Wu 001; Dinggang Shen (MICCAI (2), 2019)

Dynamic Routing Capsule Networks for Mild Cognitive Impairment Diagnosis. - Zhicheng Jiao; Pu Huang; Tae-Eui Kam; Li-Ming Hsu; Ye Wu 001; Han Zhang 002; Dinggang Shen (MICCAI (4), 2019)

Identification of Abnormal Circuit Dynamics in Major Depressive Disorder via Multiscale Neural Modeling of Resting-State fMRI. - Guoshi Li; Yujie Liu; Yanting Zheng; Ye Wu 001; Pew-Thian Yap; Shijun Qiu; Han Zhang 002; Dinggang Shen (MICCAI (3), 2019)

DeepBundle: Fiber Bundle Parcellation with Graph Convolution Neural Networks. - Feihong Liu; Jun Feng 003; Geng Chen 001; Ye Wu 001; Yoonmi Hong; Pew-Thian Yap; Dinggang Shen (GLMI@MICCAI, 2019)

Automated Parcellation of the Cortex Using Structural Connectome Harmonics. - Hoyt Patrick Taylor IV; Zhengwang Wu; Ye Wu 001; Dinggang Shen; Han Zhang 002; Pew-Thian Yap (MICCAI (3), 2019)

Multi-Site Harmonization of Diffusion MRI Data via Method of Moments. - Khoi Minh Huynh; Geng Chen 001; Ye Wu 001; Dinggang Shen; Pew-Thian Yap (IEEE Trans. Medical Imaging, 2019)

Fast Correction of Eddy-Current and Susceptibility-Induced Distortions Using Rotation-Invariant Contrasts. - Sahar Ahmad; Ye Wu 001; Khoi Minh Huynh; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (MICCAI (2), 2020)

Characterizing Intra-soma Diffusion with Spherical Mean Spectrum Imaging. - Khoi Minh Huynh; Ye Wu 001; Kim-Han Thung; Sahar Ahmad; Hoyt Patrick Taylor IV; Dinggang Shen; Pew-Thian Yap (MICCAI (7), 2020)

Globally Optimized Super-Resolution of Diffusion MRI Data via Fiber Continuity. - Ye Wu 001; Yoonmi Hong; Sahar Ahmad; Wei-Tang Chang; Weili Lin; Dinggang Shen; Pew-Thian Yap (MICCAI (7), 2020)

Tract Dictionary Learning for Fast and Robust Recognition of Fiber Bundles. - Ye Wu 001; Yoonmi Hong; Sahar Ahmad; Weili Lin; Dinggang Shen; Pew-Thian Yap (MICCAI (7), 2020)

Multifold Acceleration of Diffusion MRI via Slice-Interleaved Diffusion Encoding (SIDE). - Yoonmi Hong; Wei-Tang Chang; Geng Chen 001; Ye Wu 001; Weili Lin; Dinggang Shen; Pew-Thian Yap (CoRR, 2020)

Mitigating gyral bias in cortical tractography via asymmetric fiber orientation distributions. - Ye Wu 001; Yoonmi Hong; Yuanjing Feng; Dinggang Shen; Pew-Thian Yap (Medical Image Anal., 2020)

Probing Tissue Microarchitecture of the Baby Brain via Spherical Mean Spectrum Imaging. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Xifeng Wang; Geng Chen 001; Haiyong Wu; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (IEEE Trans. Medical Imaging, 2020)

24 shells diffusion MRI. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Xifeng Wang; Geng Chen 001; Haiyong Wu; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (Zenodo, 2020)

24-shell diffusion MRI data. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Xifeng Wang; Geng Chen 001; Haiyong Wu; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (Zenodo, 2020)

24-shell diffusion MRI data. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Xifeng Wang; Geng Chen 001; Haiyong Wu; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (Zenodo, 2020)

24-shell diffusion MRI data. - Khoi Minh Huynh; Tiantian Xu; Ye Wu 001; Xifeng Wang; Geng Chen 001; Haiyong Wu; Kim-Han Thung; Weili Lin; Dinggang Shen; Pew-Thian Yap (Zenodo, 2020)

Surface-Guided Image Fusion for Preserving Cortical Details in Human Brain Templates. - Sahar Ahmad; Ye Wu 001; Pew-Thian Yap (MICCAI (7), 2021)

Vox2Surf: Implicit Surface Reconstruction from Volumetric Data. - Yoonmi Hong; Sahar Ahmad; Ye Wu 001; Siyuan Liu 004; Pew-Thian Yap (MLMI@MICCAI, 2021)

Deep Simulation of Facial Appearance Changes Following Craniomaxillofacial Bony Movements in Orthognathic Surgical Planning. - Lei Ma 006; Daeseung Kim; Chunfeng Lian; Deqiang Xiao; Tianshu Kuang; Qin Liu; Yankun Lang; Hannah H. Deng; Jaime Gateno; Ye Wu 001; Erkun Yang; Michael A. K. Liebschner; et al. (MICCAI (4), 2021)

Highly Reproducible Whole Brain Parcellation in Individuals via Voxel Annotation with Fiber Clusters. - Ye Wu 001; Sahar Ahmad; Pew-Thian Yap (MICCAI (7), 2021)

Active Cortex Tractography. - Ye Wu 001; Yoonmi Hong; Sahar Ahmad; Pew-Thian Yap (MICCAI (7), 2021)

Harmonization of Multi-site Cortical Data Across the Human Lifespan. - Sahar Ahmad; Fang Nan; Ye Wu 001; Zhengwang Wu; Weili Lin; Li Wang 026; Gang Li 001; Di Wu; Pew-Thian Yap (MLMI@MICCAI, 2022)

Rapid Diffusion Magnetic Resonance Imaging Using Slice-Interleaved Encoding. - Tiantian Xu; Ye Wu 001; Yoonmi Hong; Sahar Ahmad; Khoi Minh Huynh; Zhixing Wang; Weili Lin; Wei-Tang Chang; Pew-Thian Yap (Medical Image Anal., 2022)

Insights from the IronTract challenge: Optimal methods for mapping brain pathways from multi-shell diffusion MRI. - Chiara Maffei; Gabriel Girard; Kurt G. Schilling; Dogu Baran Aydogan; Nagesh Adluru; Andrey Zhylka; Ye Wu 001; Matteo Mancini; Andac Hamamci; Alessia Sarica; Achille Teillac; Steven H. Baete; et al. (NeuroImage, 2022)

Cross-contrast Fusion and Aggregation Network for Multi-contrast MRI Super-resolution. - Yue Ding; Tao Zhou 002; Ye Wu 001 (ICCAI, 2023)

Microstructure Fingerprinting for Heterogeneously Oriented Tissue Microenvironments. - Khoi Minh Huynh; Ye Wu 001; Sahar Ahmad; Pew-Thian Yap (MICCAI (8), 2023)

Relaxation-Diffusion Spectrum Imaging for Probing Tissue Microarchitecture. - Ye Wu 001; Xiaoming Liu; Xinyuan Zhang; Khoi Minh Huynh; Sahar Ahmad; Pew-Thian Yap (MICCAI (8), 2023)

Hawkeye: A PyTorch-based Library for Fine-Grained Image Recognition with Deep Learning. - Jiabei He; Yang Shen; Xiu-Shen Wei; Ye Wu 001 (ACM Multimedia, 2023)

Brain Tissue Segmentation Across the Human Lifespan via Supervised Contrastive Learning. - Xiaoyang Chen; Jinjian Wu; Wenjiao Lyu; Yicheng Zou; Kim-Han Thung; Siyuan Liu 004; Ye Wu 001; Sahar Ahmad; Pew-Thian Yap (CoRR, 2023)

Can SAM Segment Polyps? - Tao Zhou 002; Yizhe Zhang 001; Yi Zhou 007; Ye Wu 001; Chen Gong 002 (CoRR, 2023)

SamDSK: Combining Segment Anything Model with Domain-Specific Knowledge for Semi-Supervised Learning in Medical Image Segmentation. - Yizhe Zhang 001; Tao Zhou 002; Shuo Wang 011; Ye Wu 001; Pengfei Gu; Danny Z. Chen (CoRR, 2023)

Segment Anything Model-guided Collaborative Learning Network for Scribble-supervised Polyp Segmentation. - Yiming Zhao; Tao Zhou 002; Yunqi Gu; Yi Zhou 007; Yizhe Zhang 001; Ye Wu 001; Huazhu Fu (CoRR, 2023)

Tractography passes the test: Results from the diffusion-simulated connectivity (disco) challenge. - Gabriel Girard; Jonathan Rafael-Patino; Raphaël Truffet; Dogu Baran Aydogan; Nagesh Adluru; Veena A. Nair; Vivek Prabhakaran; Barbara B. Bendlin; Andrew L. Alexander; Sara Bosticardo; Ilaria Gabusi; Mario Ocampo-Pineda; et al. (NeuroImage, 2023)

Jointly Estimation of Microstructure Maps Across Acquisition Protocols. - Tenglong Wang; Jiahao Yu; Yiang Pan; Jianzhong He; Yifei He; Ye Wu 001 (BIBM, 2024)

SMNET: A Spherical Mean Network for Probing Tissue Microarchitecture from Single-Shell DMRI. - Ye Wu 001; Yue Ding; Xiaoming Liu; Jiaolong Qin; Yizhe Zhang 001; Yoonmi Hong; Tao Zhou 002 (ISBI, 2024)

Transduction Enhanced Inductive Inference for Imbalanced Classification in Medical Images. - Yizhe Zhang 001; Tao Zhou 002; Ye Wu 001; Shuo Wang 011; Danny Z. Chen (ISBI, 2024)

Introducing QuantConn: Overcoming Challenging Diffusion Acquisitions with Harmonization. - Nancy Newlin; Kurt Schilling; Serge Koudoro; Bramsh Qamar Chandio; Praitayini Kanakaraj; Daniel Moyer; Claire E. Kelly; Sila Genc; Joseph Yuan-Mou Yang; Ye Wu 001; Nagesh Adluru; Vishwesh Nath; et al. (CDMRI@MICCAI, 2024)

TextPolyp: Point-Supervised Polyp Segmentation with Text Cues. - Yiming Zhao; Yi Zhou 007; Yizhe Zhang 001; Ye Wu 001; Tao Zhou 002 (MICCAI (11), 2024)

Combining Segment Anything Model with Domain-Specific Knowledge for Semi-Supervised Learning in Medical Image Segmentation. - Yizhe Zhang 001; Tao Zhou 002; Ye Wu 001; Pengfei Gu; Shuo Wang 011 (PRCV (14), 2024)

EVENet: Evidence-based Ensemble Learning for Uncertainty-aware Brain Parcellation Using Diffusion MRI. - Chenjun Li; Dian Yang; Shun Yao; Shuyue Wang; Ye Wu 001; Le Zhang 001; Qiannuo Li; Kang Ik Kevin Cho; Johanna Seitz-Holland; Lipeng Ning; Jon Haitz Legarreta; Yogesh Rathi; et al. (CoRR, 2024)

Spherical-deconvolution informed filtering of tractograms changes laterality of structural connectome. - Yifei He; Yoonmi Hong; Ye Wu 001 (NeuroImage, 2024)

Optimal shrinkage denoising breaks the noise floor in high-resolution diffusion MRI. - Khoi Minh Huynh; Wei-Tang Chang; Ye Wu 001; Pew-Thian Yap (Patterns, 2024)

Cross-contrast mutual fusion network for joint MRI reconstruction and super-resolution. - Yue Ding; Tao Zhou 002; Lei Xiang; Ye Wu 001 (Pattern Recognit., 2024)

TestFit: A plug-and-play one-pass test time method for medical image segmentation. - Yizhe Zhang 001; Tao Zhou 002; Yuhui Tao; Shuo Wang 011; Ye Wu 001; Benyuan Liu; Pengfei Gu; Qiang Chen 004; Danny Z. Chen (Medical Image Anal., 2024)

A Novel Deep Learning Approach for Tissue Microstructure Estimation Using Spherical Mean Technique. - Yiang Pan; Yuanjing Feng; Jianzhong He; Jianan Cui; Lei Xie 001; Zan Chen; Qingrun Zeng; Jiawei Zhang; Yan Yu; Konstantin K. Kukanov; Ye Wu 001 (ISBI, 2025)

Unsupervised Normative Learning for Quality Assessment on Diffusion MRI. - Jiahao Yu; Tenglong Wang; Yifei He; Yiang Pan; Jianzhong He; Ye Wu 001 (ISBI, 2025)

DDEvENet: Evidence-based ensemble learning for uncertainty-aware brain parcellation using diffusion MRI. - Chenjun Li; Dian Yang; Shun Yao; Shuyue Wang; Ye Wu 001; Le Zhang 001; Qiannuo Li; Kang Ik Kevin Cho; Johanna Seitz-Holland; Lipeng Ning; Jon Haitz Legarreta; Yogesh Rathi; et al. (Comput. Medical Imaging Graph., 2025)

WeakPolyp-SAM: Segment Anything Model-driven weakly-supervised polyp segmentation. - Yiming Zhao; Tao Zhou 002; Yunqi Gu; Yi Zhou 007; Yizhe Zhang 001; Ye Wu 001; Huazhu Fu (Knowl. Based Syst., 2025)

A survey on deep learning for polyp segmentation: techniques, challenges and future trends. - Jiaxin Mei; Tao Zhou 002; Kaiwen Huang; Yizhe Zhang 001; Yi Zhou 007; Ye Wu 001; Huazhu Fu (Vis. Intell., 2025)

Spherical Harmonics-Based Deep Learning Achieves Generalized and Accurate Diffusion Tensor Imaging. - Yunwei Chen; Jialong Li; Qiqi Lu; Ye Wu 001; Xiaoming Liu; Yuanyuan Gao; Yanqiu Feng; Zhicheng Zhang; Xinyuan Zhang (IEEE J. Biomed. Health Informatics, 2025)

Edge-aware Feature Aggregation Network for Polyp Segmentation. - Tao Zhou 002; Yizhe Zhang 001; Geng Chen 001; Yi Zhou 007; Ye Wu 001; Deng-Ping Fan (Mach. Intell. Res., 2025)

A Novel Streamline-based diffusion MRI Tractography Registration Method with Probabilistic Keypoint Detection. - Junyi Wang; Mubai Du; Ye Wu 001; Yijie Li; William M. Wells III; Lauren J. O'Donnell; Fan Zhang 013 (CoRR, 2025)

DDTracking: A Deep Generative Framework for Diffusion MRI Tractography with Streamline Local-Global Spatiotemporal Modeling. - Yijie Li; Wei Zhang; Xi Zhu; Ye Wu 001; Yogesh Rathi; Lauren J. O'Donnell; Fan Zhang 013 (CoRR, 2025)