Lauren J. O'Donnell

116 papers A* 1B 1Journal 77Unranked 36

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	AGFS-tractometry: A novel atlas-guided fine-scale tractometry approach for enhanced along-tract group statistical comparison using diffusion MRI tractography. Medical Image Anal. Ruixi Zheng, Wei Zhang, Yijie Li, Xi Zhu, Zhou Lan, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell, Fan Zhang
2026	J	`jnl`	DDTracking: A diffusion model-based deep generative framework with local-global spatiotemporal modeling for diffusion MRI tractography. Medical Image Anal. Yijie Li, Wei Zhang, Xi Zhu, Ye Wu, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2026	J	`jnl`	DeepMultiConnectome: Deep multi-task prediction of structural connectomes directly from diffusion MRI tractography. NeuroImage Marcus J. Vroemen, Yuqian Chen, Yui Lo, Tengfei Xue, Tom Weidong Cai, Fan Zhang, Josien P. W. Pluim, Lauren J. O'Donnell
2026	J	`jnl`	HARP: HARmonizing in-vivo diffusion MRI using Phantom-only training. CoRR Hwihun Jeong, Qiang Liu, Kathryn E. Keenan, Elisabeth A. Wilde, Walter Schneider, Sudhir K. Pathak, Anthony Zuccolotto, Lauren J. O'Donnell, Lipeng Ning, Yogesh Rathi
2026	J	`jnl`	TractoRC: A Unified Probabilistic Learning Framework for Joint Tractography Registration and Clustering. CoRR Yijie Li, Xi Zhu, Junyi Wang, Ye Wu, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	A Multimodal Deep Learning Approach for White Matter Shape Prediction in Diffusion MRI Tractography. CoRR Yui Lo, Yuqian Chen, Dongnan Liu, Leo R. Zekelman, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Fan Zhang, Tom Weidong Cai, Lauren J. O'Donnell
2025	—	`conf`	A Novel Deep Learning Tractography Fiber Clustering Framework for Functionally Consistent White Matter Parcellation Using Multimodal Diffusion MRI and Functional MRI. ISBI Jin Wang, Bocheng Guo, Yijie Li, Junyi Wang, Yuqian Chen, Jarrett Rushmore, Nikos Makris, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	A Novel Dual-Stream Framework for dMRI Tractography Streamline Classification with Joint dMRI and fMRI Data. CoRR Haotian Yan, Bocheng Guo, Jianzhong He, Nir A. Sochen, Ofer Pasternak, Lauren J. O'Donnell, Fan Zhang
2025	—	`conf`	A Novel Streamline-Based Diffusion MRI Tractography Registration Method with Probabilistic Keypoint Detection. MICCAI (12) Junyi Wang, Mubai Du, Ye Wu, Yijie Li, William M. Wells III, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	A Novel Streamline-based diffusion MRI Tractography Registration Method with Probabilistic Keypoint Detection. CoRR Junyi Wang, Mubai Du, Ye Wu, Yijie Li, William M. Wells III, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	AGFS-Tractometry: A Novel Atlas-Guided Fine-Scale Tractometry Approach for Enhanced Along-Tract Group Statistical Comparison Using Diffusion MRI Tractography. CoRR Ruixi Zheng, Wei Zhang, Yijie Li, Xi Zhu, Zhou Lan, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	Cross-Population White Matter Atlas Creation for Concurrent Mapping of Brain Connections in Neonates and Adults with Diffusion MRI Tractography. CoRR Wei Zhang, Yijie Li, Ruixi Zheng, Nir A. Sochen, Yuqian Chen, Leo R. Zekelman, Ofer Pasternak, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	DDCSR: A Novel End-to-End Deep Learning Framework for Cortical Surface Reconstruction from Diffusion MRI. CoRR Chengjin Li, Yuqian Chen, Nir A. Sochen, Wei Zhang, Carl-Fredrik Westin, Yogesh Rathi, Lauren J. O'Donnell, Ofer Pasternak, Fan Zhang
2025	J	`jnl`	DDEvENet: Evidence-based ensemble learning for uncertainty-aware brain parcellation using diffusion MRI. Comput. Medical Imaging Graph. Chenjun Li, Dian Yang, Shun Yao, Shuyue Wang, Ye Wu, Le Zhang, Qiannuo Li, Kang Ik Kevin Cho, Johanna Seitz-Holland, Lipeng Ning, Jon Haitz Legarreta, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell, Nir A. Sochen, Ofer Pasternak, Fan Zhang
2025	J	`jnl`	DDTracking: A Deep Generative Framework for Diffusion MRI Tractography with Streamline Local-Global Spatiotemporal Modeling. CoRR Yijie Li, Wei Zhang, Xi Zhu, Ye Wu, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	DMVFC: Deep Learning Based Functionally Consistent Tractography Fiber Clustering Using Multimodal Diffusion MRI and Functional MRI. CoRR Bocheng Guo, Jin Wang, Yijie Li, Junyi Wang, Mingyu Gao, Puming Feng, Yuqian Chen, Jarrett Rushmore, Nikos Makris, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	DMVFC: Deep Learning Based Functionally Consistent Tractography Fiber Clustering Using Multimodal Diffusion MRI and Functional MRI. IEEE J. Sel. Top. Signal Process. Bocheng Guo, Jin Wang, Yijie Li, Junyi Wang, Mingyu Gao, Puming Feng, Yuqian Chen, Jarrett Rushmore, Nikos Makris, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	Deep diffusion MRI template (DDTemplate): A novel deep learning groupwise diffusion MRI registration method for brain template creation. NeuroImage Junyi Wang, Xi Zhu, Wei Zhang, Mubai Du, William M. Wells, Lauren J. O'Donnell, Fan Zhang
2025	J	`jnl`	DeepMultiConnectome: Deep Multi-Task Prediction of Structural Connectomes Directly from Diffusion MRI Tractography. CoRR Marcus J. Vroemen, Yuqian Chen, Yui Lo, Tengfei Xue, Tom Weidong Cai, Fan Zhang, Josien P. W. Pluim, Lauren J. O'Donnell
2025	J	`jnl`	DeepNuParc: A novel deep clustering framework for fine-scale parcellation of brain nuclei using diffusion MRI tractography. NeuroImage Haolin He, Ce Zhu, Le Zhang, Yipeng Liu, Xiao Xu, Yuqian Chen, Leo R. Zekelman, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell, Fan Zhang
2025	—	`conf`	Dineuro: Distilling Knowledge from 2D Natural Images via Deformable Tubular Transferring Strategy for 3D Neuron Reconstruction. ISBI Yik San Cheng, Runkai Zhao, Heng Wang, Hanchuan Peng, Yui Lo, Yuqian Chen, Lauren J. O'Donnell, Weidong Cai
2025	—	`conf`	Medical Image Registration Meets Vision Foundation Model: Prototype Learning and Contour Awareness. IPMI (1) Hao Xu, Tengfei Xue, Jianan Fan, Dongnan Liu, Yuqian Chen, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2025	J	`jnl`	Medical Image Registration Meets Vision Foundation Model: Prototype Learning and Contour Awareness. CoRR Hao Xu, Tengfei Xue, Jianan Fan, Dongnan Liu, Yuqian Chen, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2025	J	`jnl`	MultiCo3D: Multi-Label Voxel Contrast for One-Shot Incremental Segmentation of 3D Neuroimages. CoRR Hao Xu, Tengfei Xue, Dongnan Liu, Yuqian Chen, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2025	J	`jnl`	TractCloud-FOV: Deep Learning-based Robust Tractography Parcellation in Diffusion MRI with Incomplete Field of View. CoRR Yuqian Chen, Leo R. Zekelman, Yui Lo, Suheyla Cetin Karayumak, Tengfei Xue, Yogesh Rathi, Nikos Makris, Fan Zhang, Tom Weidong Cai, Lauren J. O'Donnell
2025	J	`jnl`	TractGraphFormer: Anatomically informed hybrid graph CNN-transformer network for interpretable sex and age prediction from diffusion MRI tractography. Medical Image Anal. Yuqian Chen, Fan Zhang, Meng Wang, Leo R. Zekelman, Suheyla Cetin Karayumak, Tengfei Xue, Chaoyi Zhang, Yang Song, Jarrett Rushmore, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2025	—	`conf`	TractShapeNet: Efficient Multi-Shape Learning with 3D Tractography Point Clouds. ISBI Yui Lo, Yuqian Chen, Dongnan Liu, Jon Haitz Legarreta, Leo R. Zekelman, Fan Zhang, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Tom Weidong Cai, Lauren J. O'Donnell
2024	J	`jnl`	A Deep Network for Explainable Prediction of Non-Imaging Phenotypes using Anatomical Multi-View Data. CoRR Yuxiang Wei, Yuqian Chen, Tengfei Xue, Leo R. Zekelman, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2024	—	`conf`	A Novel Deep Clustering Framework for Fine-Scale Parcellation of Amygdala Using DMRI Tractography. ISBI Haolin He, Ce Zhu, Le Zhang, Yipeng Liu, Xiao Xu, Yuqian Chen, Leo R. Zekelman, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell, Fan Zhang
2024	J	`jnl`	A Novel Deep Learning Tractography Fiber Clustering Framework for Functionally Consistent White Matter Parcellation Using Multimodal Diffusion MRI and Functional MRI. CoRR Jin Wang, Bocheng Guo, Yijie Li, Junyi Wang, Yuqian Chen, Jarrett Rushmore, Nikos Makris, Yogesh Rathi, Lauren J. O'Donnell, Fan Zhang
2024	—	`conf`	Cross-Domain Fiber Cluster Shape Analysis for Language Performance Cognitive Score Prediction. CDMRI@MICCAI Yui Lo, Yuqian Chen, Dongnan Liu, Wan Liu, Leo R. Zekelman, Fan Zhang, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Weidong Cai, Lauren J. O'Donnell
2024	J	`jnl`	Cross-domain Fiber Cluster Shape Analysis for Language Performance Cognitive Score Prediction. CoRR Yui Lo, Yuqian Chen, Dongnan Liu, Wan Liu, Leo R. Zekelman, Fan Zhang, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Weidong Cai, Lauren J. O'Donnell
2024	J	`jnl`	DDParcel: Deep Learning Anatomical Brain Parcellation From Diffusion MRI. IEEE Trans. Medical Imaging Fan Zhang, Kang Ik Kevin Cho, Johanna Seitz-Holland, Lipeng Ning, Jon Haitz Legarreta, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell, Ofer Pasternak
2024	J	`jnl`	DINeuro: Distilling Knowledge from 2D Natural Images via Deformable Tubular Transferring Strategy for 3D Neuron Reconstruction. CoRR Yik San Cheng, Runkai Zhao, Heng Wang, Hanchuan Peng, Yui Lo, Yuqian Chen, Lauren J. O'Donnell, Weidong Cai
2024	J	`jnl`	Deep multimodal saliency parcellation of cerebellar pathways: linking microstructure and individual function through explainable multitask learning. CoRR Ari Tchetchenian, Leo R. Zekelman, Yuqian Chen, Jarrett Rushmore, Fan Zhang, Edward H. Yeterian, Nikos Makris, Yogesh Rathi, Erik Meijering, Yang Song, Lauren J. O'Donnell
2024	J	`jnl`	EVENet: Evidence-based Ensemble Learning for Uncertainty-aware Brain Parcellation Using Diffusion MRI. CoRR Chenjun Li, Dian Yang, Shun Yao, Shuyue Wang, Ye Wu, Le Zhang, Qiannuo Li, Kang Ik Kevin Cho, Johanna Seitz-Holland, Lipeng Ning, Jon Haitz Legarreta, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell, Nir A. Sochen, Ofer Pasternak, Fan Zhang
2024	—	`conf`	SAT-Morph: Unsupervised Deformable Medical Image Registration Using Vision Foundation Models with Anatomically Aware Text Prompt. MedAGI@MICCAI Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2024	J	`jnl`	The shape of the brain's connections is predictive of cognitive performance: an explainable machine learning study. CoRR Yui Lo, Yuqian Chen, Dongnan Liu, Wan Liu, Leo R. Zekelman, Jarrett Rushmore, Fan Zhang, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Weidong Cai, Lauren J. O'Donnell
2024	J	`jnl`	TractGeoNet: A geometric deep learning framework for pointwise analysis of tract microstructure to predict language assessment performance. Medical Image Anal. Yuqian Chen, Leo R. Zekelman, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Alexandra J. Golby, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2024	J	`jnl`	TractGraphFormer: Anatomically Informed Hybrid Graph CNN-Transformer Network for Classification from Diffusion MRI Tractography. CoRR Yuqian Chen, Fan Zhang, Meng Wang, Leo R. Zekelman, Suheyla Cetin Karayumak, Tengfei Xue, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Lauren J. O'Donnell
2024	J	`jnl`	TractShapeNet: Efficient Multi-Shape Learning with 3D Tractography Point Clouds. CoRR Yui Lo, Yuqian Chen, Dongnan Liu, Jon Haitz Legarreta, Leo R. Zekelman, Fan Zhang, Jarrett Rushmore, Yogesh Rathi, Nikos Makris, Alexandra J. Golby, Weidong Cai, Lauren J. O'Donnell
2024	—	`conf`	When Diffusion MRI Meets Diffusion Model: A Novel Deep Generative Model for Diffusion MRI Generation. MICCAI (2) Xi Zhu, Wei Zhang, Yijie Li, Lauren J. O'Donnell, Fan Zhang
2024	J	`jnl`	When Diffusion MRI Meets Diffusion Model: A Novel Deep Generative Model for Diffusion MRI Generation. CoRR Xi Zhu, Wei Zhang, Yijie Li, Lauren J. O'Donnell, Fan Zhang
2024	J	`jnl`	White Matter Geometry-Guided Score-Based Diffusion Model for Tissue Microstructure Imputation in Tractography Imaging. CoRR Yui Lo, Yuqian Chen, Fan Zhang, Dongnan Liu, Leo R. Zekelman, Suheyla Cetin Karayumak, Yogesh Rathi, Tom Weidong Cai, Lauren J. O'Donnell
2023	—	`conf`	A Deep Learning Framework for Estimating Multi-Fiber PICASO Model Parameters of Tissue Microstructure Using Diffusion MRI. ISBI Tengfei Xue, Hazhar Sufi Karimi, William Consagra, Fan Zhang, Weidong Cai, Lauren J. O'Donnell, Lipeng Ning, Yogesh Rathi
2023	—	`conf`	A Deep Network for Explainable Prediction of Non-imaging Phenotypes Using Anatomical Multi-view Data. CDMRI@MICCAI Yuxiang Wei, Yuqian Chen, Tengfei Xue, Leo R. Zekelman, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	—	`conf`	A Registration- and Uncertainty-Based Framework for White Matter Tract Segmentation with Only One Annotated Subject. ISBI Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2023	J	`jnl`	A Registration- and Uncertainty-based Framework for White Matter Tract Segmentation With Only One Annotated Subject. CoRR Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai
2023	—	`conf`	DEEPRGVP: A novel microstructure-informed supervised contrastive learning framework for automated identification of the retinogeniculate pathway using dMRI tractography. ISBI Sipei Li, Jianzhong He, Tengfei Xue, Guoqiang Xie, Shun Yao, Yuqian Chen, Erickson F. Torio, Yuanjing Feng, Dhiego Chaves de Almeida Bastos, Yogesh Rathi, Nikos Makris, Ron Kikinis, Wenya Linda Bi, Alexandra J. Golby, Lauren J. O'Donnell, Fan Zhang
2023	J	`jnl`	Deep fiber clustering: Anatomically informed fiber clustering with self-supervised deep learning for fast and effective tractography parcellation. NeuroImage Yuqian Chen, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	J	`jnl`	Fiber Tract Shape Measures Inform Prediction of Non-Imaging Phenotypes. CoRR Wan Liu, Yuqian Chen, Chuyang Ye, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	—	`conf`	GeoLab: Geometry-Based Tractography Parcellation of Superficial White Matter. ISBI Nabil Vindas, Nicole Labra Avila, Fan Zhang, Tengfei Xue, Lauren J. O'Donnell, Jean-François Mangin
2023	J	`jnl`	GeoLab: Geometry-based Tractography Parcellation of Superficial White Matter. CoRR Nabil Vindas, Nicole Labra Avila, Fan Zhang, Tengfei Xue, Lauren J. O'Donnell, Jean-François Mangin
2023	J	`jnl`	Reconstructing the somatotopic organization of the corticospinal tract remains a challenge for modern tractography methods. CoRR Jianzhong He, Fan Zhang, Yiang Pan, Yuanjing Feng, Jarrett Rushmore, Erickson Torio, Yogesh Rathi, Nikos Makris, Ron Kikinis, Alexandra J. Golby, Lauren J. O'Donnell
2023	J	`jnl`	Superficial white matter analysis: An efficient point-cloud-based deep learning framework with supervised contrastive learning for consistent tractography parcellation across populations and dMRI acquisitions. Medical Image Anal. Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2023	—	`conf`	TractCloud: Registration-Free Tractography Parcellation with a Novel Local-Global Streamline Point Cloud Representation. MICCAI (8) Tengfei Xue, Yuqian Chen, Chaoyi Zhang, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	J	`jnl`	TractCloud: Registration-free tractography parcellation with a novel local-global streamline point cloud representation. CoRR Tengfei Xue, Yuqian Chen, Chaoyi Zhang, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	J	`jnl`	TractGeoNet: A geometric deep learning framework for pointwise analysis of tract microstructure to predict language assessment performance. CoRR Yuqian Chen, Leo R. Zekelman, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Alexandra J. Golby, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2023	J	`jnl`	TractGraphCNN: anatomically informed graph CNN for classification using diffusion MRI tractography. CoRR Yuqian Chen, Fan Zhang, Leo R. Zekelman, Tengfei Xue, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Lauren J. O'Donnell
2023	—	`conf`	Tractgraphcnn: Anatomically Informed Graph CNN for Classification Using Diffusion MRI Tractography. ISBI Yuqian Chen, Fan Zhang, Leo R. Zekelman, Tengfei Xue, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2023	—	`conf`	Tractography-Based Parcellation of Cerebellar Dentate Nuclei via a Deep Nonnegative Matrix Factorization Clustering Method. ISBI Xiao Xu, Yuqian Chen, Leo R. Zekelman, Yogesh Rathi, Nikos Makris, Fan Zhang, Lauren J. O'Donnell
2022	J	`jnl`	A Novel Supervised Contrastive Regression Framework for Prediction of Neurocognitive Measures Using Multi-Site Harmonized Diffusion MRI Tractography. CoRR Tengfei Xue, Fan Zhang, Leo R. Zekelman, Chaoyi Zhang, Yuqian Chen, Suheyla Cetin Karayumak, Steven D. Pieper, William M. Wells III, Yogesh Rathi, Nikos Makris, Weidong Cai, Lauren J. O'Donnell
2022	J	`jnl`	Age Prediction Performance Varies Across Deep, Superficial, and Cerebellar White Matter Connections. CoRR Yuxiang Wei, Tengfei Xue, Yogesh Rathi, Nikos Makris, Fan Zhang, Lauren J. O'Donnell
2022	J	`jnl`	DFC: Anatomically Informed Fiber Clustering with Self-supervised Deep Learning for Fast and Effective Tractography Parcellation. CoRR Yuqian Chen, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2022	J	`jnl`	Deep Diffusion MRI Registration (DDMReg): A Deep Learning Method for Diffusion MRI Registration. IEEE Trans. Medical Imaging Fan Zhang, William M. Wells III, Lauren J. O'Donnell
2022	J	`jnl`	DeepRGVP: A Novel Microstructure-Informed Supervised Contrastive Learning Framework for Automated Identification Of The Retinogeniculate Pathway Using dMRI Tractography. CoRR Sipei Li, Jianzhong He, Tengfei Xue, Guoqiang Xie, Shun Yao, Yuqian Chen, Erickson F. Torio, Yuanjing Feng, Dhiego Chaves de Almeida Bastos, Yogesh Rathi, Nikos Makris, Ron Kikinis, Wenya Linda Bi, Alexandra J. Golby, Lauren J. O'Donnell, Fan Zhang
2022	J	`jnl`	How Machine Learning is Powering Neuroimaging to Improve Brain Health. Neuroinformatics Nalini M. Singh, Jordan B. Harrod, Sandya Subramanian, Mitchell B. Robinson, Ken Chang, Suheyla Cetin Karayumak, Adrian Vasile Dalca, Simon B. Eickhoff, Michael Fox, Loraine Franke, Polina Golland, Daniel Haehn, Juan Eugenio Iglesias, Lauren J. O'Donnell, Yangming Ou, Yogesh Rathi, Shan H. Siddiqi, Haoqi Sun, M. Brandon Westover, Susan L. Whitfield-Gabrieli, Randy L. Gollub
2022	—	`conf`	Model and Predict Age and Sex in Healthy Subjects Using Brain White Matter Features: A Deep Learning Approach. ISBI Hao He, Fan Zhang, Steve Pieper, Nikos Makris, Yogesh Rathi, William M. Wells III, Lauren J. O'Donnell
2022	J	`jnl`	Model and predict age and sex in healthy subjects using brain white matter features: A deep learning approach. CoRR Hao He, Fan Zhang, Steve Pieper, Nikos Makris, Yogesh Rathi, William M. Wells III, Lauren J. O'Donnell
2022	J	`jnl`	Quantitative mapping of the brain's structural connectivity using diffusion MRI tractography: A review. NeuroImage Fan Zhang, Alessandro Daducci, Yong He, Simona Schiavi, Caio Seguin, Robert E. Smith, Chun-Hung Yeh, Tengda Zhao, Lauren J. O'Donnell
2022	J	`jnl`	SupWMA: Consistent and Efficient Tractography Parcellation of Superficial White Matter with Deep Learning. CoRR Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2022	J	`jnl`	Superficial White Matter Analysis: An Efficient Point-cloud-based Deep Learning Framework with Supervised Contrastive Learning for Consistent Tractography Parcellation across Populations and dMRI Acquisitions. CoRR Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2022	—	`conf`	Supwma: Consistent and Efficient Tractography Parcellation of Superficial White Matter with Deep Learning. ISBI Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell
2022	—	`conf`	TractoFormer: A Novel Fiber-Level Whole Brain Tractography Analysis Framework Using Spectral Embedding and Vision Transformers. MICCAI (1) Fan Zhang, Tengfei Xue, Weidong Cai, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell
2022	J	`jnl`	TractoFormer: A Novel Fiber-level Whole Brain Tractography Analysis Framework Using Spectral Embedding and Vision Transformers. CoRR Fan Zhang, Tengfei Xue, Weidong Cai, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell
2022	—	`conf`	White Matter Tracts are Point Clouds: Neuropsychological Score Prediction and Critical Region Localization via Geometric Deep Learning. MICCAI (1) Yuqian Chen, Fan Zhang, Chaoyi Zhang, Tengfei Xue, Leo R. Zekelman, Jianzhong He, Yang Song, Nikos Makris, Yogesh Rathi, Alexandra J. Golby, Weidong Cai, Lauren J. O'Donnell
2022	J	`jnl`	White Matter Tracts are Point Clouds: Neuropsychological Score Prediction and Critical Region Localization via Geometric Deep Learning. CoRR Yuqian Chen, Fan Zhang, Chaoyi Zhang, Tengfei Xue, Leo R. Zekelman, Jianzhong He, Yang Song, Nikos Makris, Yogesh Rathi, Alexandra J. Golby, Tom Weidong Cai, Lauren J. O'Donnell
2022	J	`jnl`	White matter association tracts underlying language and theory of mind: An investigation of 809 brains from the Human Connectome Project. NeuroImage Leo R. Zekelman, Fan Zhang, Nikos Makris, Jianzhong He, Yuqian Chen, Tengfei Xue, Daniela Liera, Daniel L. Drane, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell
2021	—	`conf`	Deep Fiber Clustering: Anatomically Informed Unsupervised Deep Learning for Fast and Effective White Matter Parcellation. MICCAI (7) Yuqian Chen, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2021	J	`jnl`	Deep Fiber Clustering: Anatomically Informed Unsupervised Deep Learning for Fast and Effective White Matter Parcellation. CoRR Yuqian Chen, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell
2021	J	`jnl`	Deep learning based segmentation of brain tissue from diffusion MRI. NeuroImage Fan Zhang, Anna Breger, Kang Ik Kevin Cho, Lipeng Ning, Carl-Fredrik Westin, Lauren J. O'Donnell, Ofer Pasternak
2021	B	`conf`	FiberStars: Visual Comparison of Diffusion Tractography Data between Multiple Subjects. PacificVis Loraine Franke, Daniel Karl I. Weidele, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi, Daniel Haehn
2021	J	`jnl`	Image registration: Maximum likelihood, minimum entropy and deep learning. Medical Image Anal. Alireza Sedghi, Lauren J. O'Donnell, Tina Kapur, Erik G. Learned-Miller, Parvin Mousavi, William M. Wells III
2021	J	`jnl`	Tractography dissection variability: What happens when 42 groups dissect 14 white matter bundles on the same dataset? NeuroImage Kurt G. Schilling, François Rheault, Laurent Petit, Colin B. Hansen, Vishwesh Nath, Fang-Cheng Yeh, Gabriel Girard, Muhamed Barakovic, Jonathan Rafael-Patino, Thomas Yu, Elda Fischi Gomez, Marco Pizzolato, Mario Ocampo-Pineda, Simona Schiavi, Erick Jorge Canales-Rodríguez, Alessandro Daducci, Cristina Granziera, Giorgio M. Innocenti, Jean-Philippe Thiran, Laura Mancini, Stephen J. Wastling, Sirio Cocozza, Maria Petracca, Giuseppe Pontillo, Matteo Mancini, Sjoerd B. Vos, Vejay N. Vakharia, John S. Duncan, Helena Melero, Lidia Manzanedo, Emilio Sanz-Morales, Ángel Peña-Melián, Fernando Calamante, Arnaud Attye, Ryan P. Cabeen, Laura Korobova, Arthur W. Toga, Anupa Ambili Vijayakumari, Drew Parker, Ragini Verma, Ahmed M. Radwan, Stefan Sunaert, Louise Emsell, Alberto De Luca, Alexander Leemans, Claude J. Bajada, Hamied A. Haroon, Hojjatollah Azadbakht, Maxime Chamberland, Sila Genc, Chantal M. W. Tax, Ping Hong Yeh, Rujirutana Srikanchana, Colin D. Mcknight, Joseph Yuan-Mou Yang, Jian Chen, Claire E. Kelly, Chun-Hung Yeh, Jérôme Cochereau, Jerome J. Maller, Thomas Welton, Fabien Almairac, Kiran K. Seunarine, Chris A. Clark, Fan Zhang, Nikos Makris, Alexandra J. Golby, Yogesh Rathi, Lauren J. O'Donnell, Yihao Xia, Dogu Baran Aydogan, Yonggang Shi, Francisco Guerreiro Fernandes, Mathijs Raemaekers, Shaun Warrington, Stijn Michielse, Alonso Ramirez-Manzanares, Luis Concha, Ramón Aranda, Mariano Rivera Meraz, Garikoitz Lerma-Usabiaga, Lucas Roitman, Lucius S. Fekonja, Navona Calarco, Michael Joseph, Hajer Nakua, Aristotle N. Voineskos, Philippe Karan, Gabrielle Grenier, Jon Haitz Legarreta, Nagesh Adluru, Veena A. Nair, Vivek Prabhakaran, Andrew L. Alexander, Koji Kamagata, Yuya Saito, Wataru Uchida, Christina Andica, Masahiro Abe, Roza G. Bayrak, Claudia A. M. Gandini Wheeler-Kingshott, Egidio D'Angelo, Fulvia Palesi, Giovanni Savini, Nicolò Rolandi, Pamela Guevara, Josselin Houenou, Narciso López-López, Jean-François Mangin, Cyril Poupon, Claudio Román, Andrea Vázquez, Chiara Maffei, Mavilde Arantes, José Paulo Andrade, Susana Maria Silva, Vince D. Calhoun, Eduardo Caverzasi, Simone Sacco, Michael Lauricella, Franco Pestilli, Daniel Bullock, Yang Zhan, Edith Brignoni-Pérez, Catherine Lebel, Jess E. Reynolds, Igor Nestrasil, René Labounek, Christophe Lenglet, Amy Paulson, Stefania Aulicka, Sarah R. Heilbronner, Katja Heuer, Bramsh Qamar Chandio, Javier Guaje, Wei Tang, Eleftherios Garyfallidis, Rajikha Raja, Adam W. Anderson, Bennett A. Landman, Maxime Descoteaux
2020	J	`jnl`	Creation of a novel trigeminal tractography atlas for automated trigeminal nerve identification. NeuroImage Fan Zhang, Guoqiang Xie, Laura Leung, Michael A. Mooney, Lorenz Epprecht, Isaiah Norton, Yogesh Rathi, Ron Kikinis, Ossama Al-Mefty, Nikos Makris, Alexandra J. Golby, Lauren J. O'Donnell
2020	J	`jnl`	Deep white matter analysis (DeepWMA): Fast and consistent tractography segmentation. Medical Image Anal. Fan Zhang, Suheyla Cetin Karayumak, Nico Hoffmann, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell
2020	J	`jnl`	FiberStars: Visual Comparison of Diffusion Tractography Data between Multiple Subjects. CoRR Loraine Franke, Daniel Karl I. Weidele, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi, Daniel Haehn
2020	—	`conf`	Mapping Cerebral Connectivity Changes after Mild Traumatic Brain Injury in Older Adults Using Diffusion Tensor Imaging and Riemannian Matching of Elastic Curves. ISBI Andrei Irimia, Di Fan, Nikhil N. Chaudhari, Van Ngo, Fan Zhang, Shantanu H. Joshi, Lauren J. O'Donnell
2020	—	`conf`	TRAKO: Efficient Transmission of Tractography Data for Visualization. MICCAI (7) Daniel Haehn, Loraine Franke, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi
2019	—	`conf`	Deep White Matter Analysis: Fast, Consistent Tractography Segmentation Across Populations and dMRI Acquisitions. MICCAI (3) Fan Zhang, Nico Hoffmann, Suheyla Cetin Karayumak, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell
2019	—	`conf`	Efficient 3D Depthwise and Separable Convolutions with Dilation for Brain Tumor Segmentation. Australasian Conference on Artificial Intelligence Donghao Zhang, Yang Song, Dongnan Liu, Chaoyi Zhang, Yicheng Wu, Heng Wang, Fan Zhang, Yong Xia, Lauren J. O'Donnell, Weidong Cai
2019	J	`jnl`	MK-curve - Characterizing the relation between mean kurtosis and alterations in the diffusion MRI signal. NeuroImage Fan Zhang, Lipeng Ning, Lauren J. O'Donnell, Ofer Pasternak
2019	—	`conf`	Post-Traumatic Cerebral Microhemorrhages and their Effects Upon White Matter Connectivity in the Aging Human Brain. EMBC Di Fan, Nikhil N. Chaudhari, Kenneth A. Rostowsky, Maria Calvillo, Sean K. Lee, Nahian F. Chowdhury, Fan Zhang, Lauren J. O'Donnell, Andrei Irimia
2018	—	`conf`	3D Large Kernel Anisotropic Network for Brain Tumor Segmentation. ICONIP (7) Dongnan Liu, Donghao Zhang, Yang Song, Fan Zhang, Lauren J. O'Donnell, Weidong Cai
2018	J	`jnl`	A comparison of three fiber tract delineation methods and their impact on white matter analysis. NeuroImage Valerie J. Sydnor, Ana María Rivas-Grajales, Amanda E. Lyall, Fan Zhang, Sylvain Bouix, Sarina Karmacharya, Martha Elizabeth Shenton, Carl-Fredrik Westin, Nikos Makris, Demian Wassermann, Lauren J. O'Donnell, Marek Kubicki
2018	J	`jnl`	An anatomically curated fiber clustering white matter atlas for consistent white matter tract parcellation across the lifespan. NeuroImage Fan Zhang, Ye Wu, Isaiah Norton, Laura Rigolo, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell
2018	J	`jnl`	Investigation into local white matter abnormality in emotional processing and sensorimotor areas using an automatically annotated fiber clustering in major depressive disorder. NeuroImage Ye Wu, Fan Zhang, Nikos Makris, Yuping Ning, Isaiah Norton, Shenglin She, Hongjun Peng, Yogesh Rathi, Yuanjing Feng, Huawang Wu, Lauren J. O'Donnell
2018	J	`jnl`	Suprathreshold fiber cluster statistics: Leveraging white matter geometry to enhance tractography statistical analysis. NeuroImage Fan Zhang, Weining Wu, Lipeng Ning, Gloria McAnulty, Deborah P. Waber, Borjan A. Gagoski, Kiera Sarill, Hesham M. Hamoda, Yang Song, Weidong Cai, Yogesh Rathi, Lauren J. O'Donnell
2018	J	`jnl`	Whole brain white matter connectivity analysis using machine learning: An application to autism. NeuroImage Fan Zhang, Peter Savadjiev, Weidong Cai, Yang Song, Yogesh Rathi, Birkan Tunç, Drew Parker, Tina Kapur, Robert T. Schultz, Nikos Makris, Ragini Verma, Lauren J. O'Donnell
2017	—	`conf`	Automated connectivity-based groupwise cortical atlas generation: Application to data of neurosurgical patients with brain tumors for cortical parcellation prediction. ISBI Fan Zhang, Pegah Kahali, Yannick Suter, Isaiah Norton, Laura Rigolo, Peter Savadjiev, Yang Song, Yogesh Rathi, Tom Weidong Cai, William M. Wells III, Alexandra J. Golby, Lauren J. O'Donnell
2017	—	`conf`	Comparison between two white matter segmentation strategies: An investigation into white matter segmentation consistency. ISBI Fan Zhang, Isaiah Norton, Weidong Cai, Yang Song, William M. Wells III, Lauren J. O'Donnell
2017	A*	`conf`	Locally-Transferred Fisher Vectors for Texture Classification. ICCV Yang Song, Fan Zhang, Qing Li, Heng Huang, Lauren J. O'Donnell, Weidong Cai
2017	—	`conf`	Patient-Specific Skeletal Muscle Fiber Modeling from Structure Tensor Field of Clinical CT Images. MICCAI (1) Yoshito Otake, Futoshi Yokota, Norio Fukuda, Masaki Takao, Shu Takagi, Naoto Yamamura, Lauren J. O'Donnell, Carl-Fredrik Westin, Nobuhiko Sugano, Yoshinobu Sato
2017	—	`conf`	Reconstruction of 3D Muscle Fiber Structure Using High Resolution Cryosectioned Volume. MSKI@MICCAI Yoshito Otake, Kohei Miyamoto, Axel Ollivier, Futoshi Yokota, Norio Fukuda, Lauren J. O'Donnell, Carl-Fredrik Westin, Masaki Takao, Nobuhiko Sugano, Beom Sun Chung, Jin-Seo Park, Yoshinobu Sato
2017	—	`conf`	Supra-Threshold Fiber Cluster Statistics for Data-Driven Whole Brain Tractography Analysis. MICCAI (1) Fan Zhang, Weining Wu, Lipeng Ning, Gloria McAnulty, Deborah P. Waber, Borjan A. Gagoski, Kiera Sarill, Hesham M. Hamoda, Yang Song, Weidong Cai, Yogesh Rathi, Lauren J. O'Donnell
2016	J	`jnl`	Corticospinal tract modeling for neurosurgical planning by tracking through regions of peritumoral edema and crossing fibers using two-tensor unscented Kalman filter tractography. Int. J. Comput. Assist. Radiol. Surg. Zhenrui Chen, Yanmei Tie, Olutayo I. Olubiyi, Fan Zhang, Alireza Mehrtash, Laura Rigolo, Pegah Kahali, Isaiah Norton, Ofer Pasternak, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell
2016	—	`conf`	Fiber clustering based white matter connectivity analysis for prediction of Autism Spectrum Disorder using diffusion tensor imaging. ISBI Fan Zhang, Peter Savadjiev, Tom Weidong Cai, Yang Song, Ragini Verma, Carl-Fredrik Westin, Lauren J. O'Donnell
2016	J	`jnl`	Q-space trajectory imaging for multidimensional diffusion MRI of the human brain. NeuroImage Carl-Fredrik Westin, Hans Knutsson, Ofer Pasternak, Filip Szczepankiewicz, Evren Özarslan, Danielle van Westen, Cecilia Mattisson, Mats Bogren, Lauren J. O'Donnell, Marek Kubicki, Daniel Topgaard, Markus Nilsson
2015	—	`ch.`	Statistical and Machine Learning Methods for Neuroimaging: Examples, Challenges, and Extensions to Diffusion Imaging Data. Visualization and Processing of Higher Order Descriptors for Multi-Valued Data Lauren J. O'Donnell, Thomas Schultz
2013	J	`jnl`	Fiber clustering versus the parcellation-based connectome. NeuroImage Lauren J. O'Donnell, Alexandra J. Golby, Carl-Fredrik Westin
2012	—	`conf`	Unbiased Groupwise Registration of White Matter Tractography. MICCAI (3) Lauren J. O'Donnell, William M. Wells III, Alexandra J. Golby, Carl-Fredrik Westin
2012	J	`jnl`	fMRI-DTI modeling via landmark distance atlases for prediction and detection of fiber tracts. NeuroImage Lauren J. O'Donnell, Laura Rigolo, Isaiah Norton, William M. Wells III, Carl-Fredrik Westin, Alexandra J. Golby
2010	—	`conf`	The Fiber Laterality Histogram: A New Way to Measure White Matter Asymmetry. MICCAI (2) Lauren J. O'Donnell, Carl-Fredrik Westin, Isaiah Norton, Stephen Whalen, Laura Rigolo, Ruth E. Propper, Alexandra J. Golby
2009	J	`jnl`	Quantitative examination of a novel clustering method using magnetic resonance diffusion tensor tractography. NeuroImage Aristotle N. Voineskos, Lauren J. O'Donnell, Nancy J. Lobaugh, Douglas Markant, Stephanie Ameis, Marc Niethammer, Benoit H. Mulsant, Bruce G. Pollock, James L. Kennedy, Carl-Fredrik Westin, Martha Elizabeth Shenton
2009	J	`jnl`	Tract-based morphometry for white matter group analysis. NeuroImage Lauren J. O'Donnell, Carl-Fredrik Westin, Alexandra J. Golby
2007	J	`jnl`	Automatic Tractography Segmentation Using a High-Dimensional White Matter Atlas. IEEE Trans. Medical Imaging Lauren J. O'Donnell, Carl-Fredrik Westin