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Lauren J. O'Donnell
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2020 – today
- 2024
[j30]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:
TractGeoNet: A geometric deep learning framework for pointwise analysis of tract microstructure to predict language assessment performance. Medical Image Anal. 94: 103120 (2024)- [j29]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:
DDParcel: Deep Learning Anatomical Brain Parcellation From Diffusion MRI. IEEE Trans. Medical Imaging 43(3): 1191-1202 (2024) - [c45]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:
A Novel Deep Clustering Framework for Fine-Scale Parcellation of Amygdala Using DMRI Tractography. ISBI 2024: 1-5 - [c44]Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai:
SAT-Morph: Unsupervised Deformable Medical Image Registration Using Vision Foundation Models with Anatomically Aware Text Prompt. MedAGI@MICCAI 2024: 71-80 - [c43]Xi Zhu, Wei Zhang, Yijie Li, Lauren J. O'Donnell, Fan Zhang:
When Diffusion MRI Meets Diffusion Model: A Novel Deep Generative Model for Diffusion MRI Generation. MICCAI (2) 2024: 530-540 - [i32]Yuxiang Wei, Yuqian Chen, Tengfei Xue, Leo R. Zekelman, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
A Deep Network for Explainable Prediction of Non-Imaging Phenotypes using Anatomical Multi-View Data. CoRR abs/2401.04579 (2024) - [i31]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:
Cross-domain Fiber Cluster Shape Analysis for Language Performance Cognitive Score Prediction. CoRR abs/2403.19001 (2024) - [i30]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:
TractGraphFormer: Anatomically Informed Hybrid Graph CNN-Transformer Network for Classification from Diffusion MRI Tractography. CoRR abs/2407.08883 (2024) - [i29]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:
Deep multimodal saliency parcellation of cerebellar pathways: linking microstructure and individual function through explainable multitask learning. CoRR abs/2407.15132 (2024) - [i28]Yui Lo, Yuqian Chen, Fan Zhang, Dongnan Liu, Leo R. Zekelman, Suheyla Cetin Karayumak, Yogesh Rathi, Tom Weidong Cai, Lauren J. O'Donnell:
White Matter Geometry-Guided Score-Based Diffusion Model for Tissue Microstructure Imputation in Tractography Imaging. CoRR abs/2407.19460 (2024) - [i27]Xi Zhu, Wei Zhang, Yijie Li, Lauren J. O'Donnell, Fan Zhang:
When Diffusion MRI Meets Diffusion Model: A Novel Deep Generative Model for Diffusion MRI Generation. CoRR abs/2408.12897 (2024) - [i26]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:
EVENet: Evidence-based Ensemble Learning for Uncertainty-aware Brain Parcellation Using Diffusion MRI. CoRR abs/2409.07020 (2024) - [i25]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:
The shape of the brain's connections is predictive of cognitive performance: an explainable machine learning study. CoRR abs/2410.15108 (2024) - [i24]Yik San Cheng, Runkai Zhao, Heng Wang, Hanchuan Peng, Yui Lo, Yuqian Chen, Lauren J. O'Donnell, Weidong Cai:
DINeuro: Distilling Knowledge from 2D Natural Images via Deformable Tubular Transferring Strategy for 3D Neuron Reconstruction. CoRR abs/2410.22078 (2024) - [i23]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:
TractShapeNet: Efficient Multi-Shape Learning with 3D Tractography Point Clouds. CoRR abs/2410.22099 (2024) - 2023
- [j28]Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell:
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. 85: 102759 (2023) - [j27]Yuqian Chen, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
Deep fiber clustering: Anatomically informed fiber clustering with self-supervised deep learning for fast and effective tractography parcellation. NeuroImage 273: 120086 (2023) - [c42]Yuqian Chen, Fan Zhang, Leo R. Zekelman, Tengfei Xue, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell:
Tractgraphcnn: Anatomically Informed Graph CNN for Classification Using Diffusion MRI Tractography. ISBI 2023: 1-5 - [c41]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:
DEEPRGVP: A novel microstructure-informed supervised contrastive learning framework for automated identification of the retinogeniculate pathway using dMRI tractography. ISBI 2023: 1-5 - [c40]Nabil Vindas, Nicole Labra Avila, Fan Zhang, Tengfei Xue, Lauren J. O'Donnell, Jean-François Mangin:
GeoLab: Geometry-Based Tractography Parcellation of Superficial White Matter. ISBI 2023: 1-5 - [c39]Xiao Xu, Yuqian Chen, Leo R. Zekelman, Yogesh Rathi, Nikos Makris, Fan Zhang, Lauren J. O'Donnell:
Tractography-Based Parcellation of Cerebellar Dentate Nuclei via a Deep Nonnegative Matrix Factorization Clustering Method. ISBI 2023: 1-4 - [c38]Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai:
A Registration- and Uncertainty-Based Framework for White Matter Tract Segmentation with Only One Annotated Subject. ISBI 2023: 1-5 - [c37]Tengfei Xue, Hazhar Sufi Karimi, William Consagra, Fan Zhang, Weidong Cai, Lauren J. O'Donnell, Lipeng Ning, Yogesh Rathi:
A Deep Learning Framework for Estimating Multi-Fiber PICASO Model Parameters of Tissue Microstructure Using Diffusion MRI. ISBI 2023: 1-5 - [c36]Yuxiang Wei, Yuqian Chen, Tengfei Xue, Leo R. Zekelman, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
A Deep Network for Explainable Prediction of Non-imaging Phenotypes Using Anatomical Multi-view Data. CDMRI@MICCAI 2023: 165-176 - [c35]Tengfei Xue, Yuqian Chen, Chaoyi Zhang, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
TractCloud: Registration-Free Tractography Parcellation with a Novel Local-Global Streamline Point Cloud Representation. MICCAI (8) 2023: 409-419 - [i22]Yuqian Chen, Fan Zhang, Leo R. Zekelman, Tengfei Xue, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Lauren J. O'Donnell:
TractGraphCNN: anatomically informed graph CNN for classification using diffusion MRI tractography. CoRR abs/2301.01911 (2023) - [i21]Nabil Vindas, Nicole Labra Avila, Fan Zhang, Tengfei Xue, Lauren J. O'Donnell, Jean-François Mangin:
GeoLab: Geometry-based Tractography Parcellation of Superficial White Matter. CoRR abs/2303.01147 (2023) - [i20]Wan Liu, Yuqian Chen, Chuyang Ye, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
Fiber Tract Shape Measures Inform Prediction of Non-Imaging Phenotypes. CoRR abs/2303.09124 (2023) - [i19]Hao Xu, Tengfei Xue, Dongnan Liu, Fan Zhang, Carl-Fredrik Westin, Ron Kikinis, Lauren J. O'Donnell, Weidong Cai:
A Registration- and Uncertainty-based Framework for White Matter Tract Segmentation With Only One Annotated Subject. CoRR abs/2303.14371 (2023) - [i18]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:
Reconstructing the somatotopic organization of the corticospinal tract remains a challenge for modern tractography methods. CoRR abs/2306.05623 (2023) - [i17]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:
TractGeoNet: A geometric deep learning framework for pointwise analysis of tract microstructure to predict language assessment performance. CoRR abs/2307.03982 (2023) - [i16]Tengfei Xue, Yuqian Chen, Chaoyi Zhang, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
TractCloud: Registration-free tractography parcellation with a novel local-global streamline point cloud representation. CoRR abs/2307.09000 (2023) - 2022
- [j26]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:
White matter association tracts underlying language and theory of mind: An investigation of 809 brains from the Human Connectome Project. NeuroImage 246: 118739 (2022) - [j25]Fan Zhang, Alessandro Daducci, Yong He, Simona Schiavi, Caio Seguin, Robert E. Smith, Chun-Hung Yeh, Tengda Zhao, Lauren J. O'Donnell:
Quantitative mapping of the brain's structural connectivity using diffusion MRI tractography: A review. NeuroImage 249: 118870 (2022) - [j24]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:
How Machine Learning is Powering Neuroimaging to Improve Brain Health. Neuroinformatics 20(4): 943-964 (2022) - [j23]Fan Zhang, William M. Wells III, Lauren J. O'Donnell:
Deep Diffusion MRI Registration (DDMReg): A Deep Learning Method for Diffusion MRI Registration. IEEE Trans. Medical Imaging 41(6): 1454-1467 (2022) - [j22]Tiange Xiang, Yang Song, Chaoyi Zhang, Dongnan Liu, Mei Chen, Fan Zhang, Heng Huang, Lauren O'Donnell, Weidong Cai:
DSNet: A Dual-Stream Framework for Weakly-Supervised Gigapixel Pathology Image Analysis. IEEE Trans. Medical Imaging 41(8): 2180-2190 (2022) - [c34]Hao He, Fan Zhang, Steve Pieper, Nikos Makris, Yogesh Rathi, William M. Wells III, Lauren J. O'Donnell:
Model and Predict Age and Sex in Healthy Subjects Using Brain White Matter Features: A Deep Learning Approach. ISBI 2022: 1-5 - [c33]Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell:
Supwma: Consistent and Efficient Tractography Parcellation of Superficial White Matter with Deep Learning. ISBI 2022: 1-5 - [c32]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:
White Matter Tracts are Point Clouds: Neuropsychological Score Prediction and Critical Region Localization via Geometric Deep Learning. MICCAI (1) 2022: 174-184 - [c31]Fan Zhang, Tengfei Xue, Weidong Cai, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell:
TractoFormer: A Novel Fiber-Level Whole Brain Tractography Analysis Framework Using Spectral Embedding and Vision Transformers. MICCAI (1) 2022: 196-206 - [i15]Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell:
SupWMA: Consistent and Efficient Tractography Parcellation of Superficial White Matter with Deep Learning. CoRR abs/2201.12528 (2022) - [i14]Hao He, Fan Zhang, Steve Pieper, Nikos Makris, Yogesh Rathi, William M. Wells III, Lauren J. O'Donnell:
Model and predict age and sex in healthy subjects using brain white matter features: A deep learning approach. CoRR abs/2202.03595 (2022) - [i13]Yuqian Chen, Chaoyi Zhang, Tengfei Xue, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
DFC: Anatomically Informed Fiber Clustering with Self-supervised Deep Learning for Fast and Effective Tractography Parcellation. CoRR abs/2205.00627 (2022) - [i12]Fan Zhang, Tengfei Xue, Weidong Cai, Yogesh Rathi, Carl-Fredrik Westin, Lauren J. O'Donnell:
TractoFormer: A Novel Fiber-level Whole Brain Tractography Analysis Framework Using Spectral Embedding and Vision Transformers. CoRR abs/2207.02327 (2022) - [i11]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:
White Matter Tracts are Point Clouds: Neuropsychological Score Prediction and Critical Region Localization via Geometric Deep Learning. CoRR abs/2207.02402 (2022) - [i10]Tengfei Xue, Fan Zhang, Chaoyi Zhang, Yuqian Chen, Yang Song, Alexandra J. Golby, Nikos Makris, Yogesh Rathi, Weidong Cai, Lauren J. O'Donnell:
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 abs/2207.08975 (2022) - [i9]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:
A Novel Supervised Contrastive Regression Framework for Prediction of Neurocognitive Measures Using Multi-Site Harmonized Diffusion MRI Tractography. CoRR abs/2210.07411 (2022) - [i8]Yuxiang Wei, Tengfei Xue, Yogesh Rathi, Nikos Makris, Fan Zhang, Lauren J. O'Donnell:
Age Prediction Performance Varies Across Deep, Superficial, and Cerebellar White Matter Connections. CoRR abs/2211.07398 (2022) - [i7]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:
DeepRGVP: A Novel Microstructure-Informed Supervised Contrastive Learning Framework for Automated Identification Of The Retinogeniculate Pathway Using dMRI Tractography. CoRR abs/2211.08119 (2022) - 2021
- [j21]Alireza Sedghi, Lauren J. O'Donnell, Tina Kapur, Erik G. Learned-Miller, Parvin Mousavi, William M. Wells III:
Image registration: Maximum likelihood, minimum entropy and deep learning. Medical Image Anal. 69: 101939 (2021) - [j20]Fan Zhang, Anna Breger, Kang Ik Kevin Cho, Lipeng Ning, Carl-Fredrik Westin, Lauren J. O'Donnell, Ofer Pasternak:
Deep learning based segmentation of brain tissue from diffusion MRI. NeuroImage 233: 117934 (2021) - [j19]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:
Tractography dissection variability: What happens when 42 groups dissect 14 white matter bundles on the same dataset? NeuroImage 243: 118502 (2021) - [j18]Dongnan Liu, Donghao Zhang, Yang Song, Fan Zhang, Lauren O'Donnell, Heng Huang, Mei Chen, Weidong Cai:
PDAM: A Panoptic-Level Feature Alignment Framework for Unsupervised Domain Adaptive Instance Segmentation in Microscopy Images. IEEE Trans. Medical Imaging 40(1): 154-165 (2021) - [c30]Loraine Franke, Daniel Karl I. Weidele, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi, Daniel Haehn:
FiberStars: Visual Comparison of Diffusion Tractography Data between Multiple Subjects. PacificVis 2021: 116-125 - [c29]Yuqian Chen, Yang Song, Chaoyi Zhang, Fan Zhang, Lauren O'Donnell, Wojciech Chrzanowski, Weidong Cai:
Celltrack R-CNN: A Novel End-To-End Deep Neural Network For Cell Segmentation And Tracking In Microscopy Images. ISBI 2021: 779-782 - [c28]Yuqian Chen, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
Deep Fiber Clustering: Anatomically Informed Unsupervised Deep Learning for Fast and Effective White Matter Parcellation. MICCAI (7) 2021: 497-507 - [i6]Yuqian Chen, Yang Song, Chaoyi Zhang, Fan Zhang, Lauren O'Donnell, Wojciech Chrzanowski, Weidong Cai:
CellTrack R-CNN: A Novel End-To-End Deep Neural Network for Cell Segmentation and Tracking in Microscopy Images. CoRR abs/2102.10377 (2021) - [i5]Yuqian Chen, Chaoyi Zhang, Yang Song, Nikos Makris, Yogesh Rathi, Tom Weidong Cai, Fan Zhang, Lauren J. O'Donnell:
Deep Fiber Clustering: Anatomically Informed Unsupervised Deep Learning for Fast and Effective White Matter Parcellation. CoRR abs/2107.04938 (2021) - [i4]Tiange Xiang, Yang Song, Chaoyi Zhang, Dongnan Liu, Mei Chen, Fan Zhang, Heng Huang, Lauren O'Donnell, Weidong Cai:
DSNet: A Dual-Stream Framework for Weakly-Supervised Gigapixel Pathology Image Analysis. CoRR abs/2109.05788 (2021) - 2020
- [j17]Fan Zhang, Suheyla Cetin Karayumak, Nico Hoffmann, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell:
Deep white matter analysis (DeepWMA): Fast and consistent tractography segmentation. Medical Image Anal. 65: 101761 (2020) - [j16]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:
Creation of a novel trigeminal tractography atlas for automated trigeminal nerve identification. NeuroImage 220: 117063 (2020) - [c27]Dongnan Liu, Donghao Zhang, Yang Song, Fan Zhang, Lauren O'Donnell, Heng Huang, Mei Chen, Weidong Cai:
Unsupervised Instance Segmentation in Microscopy Images via Panoptic Domain Adaptation and Task Re-Weighting. CVPR 2020: 4242-4251 - [c26]Andrei Irimia, Di Fan, Nikhil N. Chaudhari, Van Ngo, Fan Zhang, Shantanu H. Joshi, Lauren J. O'Donnell:
Mapping Cerebral Connectivity Changes after Mild Traumatic Brain Injury in Older Adults Using Diffusion Tensor Imaging and Riemannian Matching of Elastic Curves. ISBI 2020: 1690-1693 - [c25]Daniel Haehn, Loraine Franke, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi:
TRAKO: Efficient Transmission of Tractography Data for Visualization. MICCAI (7) 2020: 322-332 - [i3]Daniel Haehn, Loraine Franke, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren O'Donnell, Yogesh Rathi:
TRAKO: Efficient Transmission of Tractography Data for Visualization. CoRR abs/2004.13630 (2020) - [i2]Dongnan Liu, Donghao Zhang, Yang Song, Fan Zhang, Lauren O'Donnell, Heng Huang, Mei Chen, Weidong Cai:
Unsupervised Instance Segmentation in Microscopy Images via Panoptic Domain Adaptation and Task Re-weighting. CoRR abs/2005.02066 (2020) - [i1]Loraine Franke, Daniel Karl I. Weidele, Fan Zhang, Suheyla Cetin Karayumak, Steve Pieper, Lauren J. O'Donnell, Yogesh Rathi, Daniel Haehn:
FiberStars: Visual Comparison of Diffusion Tractography Data between Multiple Subjects. CoRR abs/2005.08090 (2020)
2010 – 2019
- 2019
- [j15]Fan Zhang, Lipeng Ning, Lauren J. O'Donnell, Ofer Pasternak:
MK-curve - Characterizing the relation between mean kurtosis and alterations in the diffusion MRI signal. NeuroImage 196: 68-80 (2019) - [c24]Donghao Zhang, Yang Song, Dongnan Liu, Chaoyi Zhang, Yicheng Wu, Heng Wang, Fan Zhang, Yong Xia, Lauren J. O'Donnell, Weidong Cai:
Efficient 3D Depthwise and Separable Convolutions with Dilation for Brain Tumor Segmentation. Australasian Conference on Artificial Intelligence 2019: 563-573 - [c23]Di Fan, Nikhil N. Chaudhari, Kenneth A. Rostowsky, Maria Calvillo, Sean K. Lee, Nahian F. Chowdhury, Fan Zhang, Lauren J. O'Donnell, Andrei Irimia:
Post-Traumatic Cerebral Microhemorrhages and their Effects Upon White Matter Connectivity in the Aging Human Brain. EMBC 2019: 198-203 - [c22]Dongnan Liu, Donghao Zhang, Yang Song, Chaoyi Zhang, Fan Zhang, Lauren O'Donnell, Weidong Cai:
Nuclei Segmentation via a Deep Panoptic Model with Semantic Feature Fusion. IJCAI 2019: 861-868 - [c21]Fan Zhang, Nico Hoffmann, Suheyla Cetin Karayumak, Yogesh Rathi, Alexandra J. Golby, Lauren J. O'Donnell:
Deep White Matter Analysis: Fast, Consistent Tractography Segmentation Across Populations and dMRI Acquisitions. MICCAI (3) 2019: 599-608 - 2018
- [j14]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:
Suprathreshold fiber cluster statistics: Leveraging white matter geometry to enhance tractography statistical analysis. NeuroImage 171: 341-354 (2018) - [j13]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:
Whole brain white matter connectivity analysis using machine learning: An application to autism. NeuroImage 172: 826-837 (2018) - [j12]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:
A comparison of three fiber tract delineation methods and their impact on white matter analysis. NeuroImage 178: 318-331 (2018) - [j11]Fan Zhang, Ye Wu, Isaiah Norton, Laura Rigolo, Yogesh Rathi, Nikos Makris, Lauren J. O'Donnell:
An anatomically curated fiber clustering white matter atlas for consistent white matter tract parcellation across the lifespan. NeuroImage 179: 429-447 (2018) - [j10]Ye Wu, Fan Zhang, Nikos Makris, Yuping Ning, Isaiah Norton, Shenglin She, Hongjun Peng, Yogesh Rathi, Yuanjing Feng, Huawang Wu, Lauren J. O'Donnell:
Investigation into local white matter abnormality in emotional processing and sensorimotor areas using an automatically annotated fiber clustering in major depressive disorder. NeuroImage 181: 16-29 (2018) - [c20]Dongnan Liu, Donghao Zhang, Yang Song, Fan Zhang, Lauren J. O'Donnell, Weidong Cai:
3D Large Kernel Anisotropic Network for Brain Tumor Segmentation. ICONIP (7) 2018: 444-454 - 2017
- [c19]Yang Song, Fan Zhang, Qing Li, Heng Huang, Lauren J. O'Donnell, Weidong Cai:
Locally-Transferred Fisher Vectors for Texture Classification. ICCV 2017: 4922-4930 - [c18]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:
Automated connectivity-based groupwise cortical atlas generation: Application to data of neurosurgical patients with brain tumors for cortical parcellation prediction. ISBI 2017: 774-777 - [c17]Fan Zhang, Isaiah Norton, Weidong Cai, Yang Song, William M. Wells III, Lauren J. O'Donnell:
Comparison between two white matter segmentation strategies: An investigation into white matter segmentation consistency. ISBI 2017: 796-799 - [c16]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:
Reconstruction of 3D Muscle Fiber Structure Using High Resolution Cryosectioned Volume. MSKI@MICCAI 2017: 85-94 - [c15]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:
Supra-Threshold Fiber Cluster Statistics for Data-Driven Whole Brain Tractography Analysis. MICCAI (1) 2017: 556-565 - [c14]Yoshito Otake, Futoshi Yokota, Norio Fukuda, Masaki Takao, Shu Takagi, Naoto Yamamura, Lauren J. O'Donnell, Carl-Fredrik Westin, Nobuhiko Sugano, Yoshinobu Sato:
Patient-Specific Skeletal Muscle Fiber Modeling from Structure Tensor Field of Clinical CT Images. MICCAI (1) 2017: 656-663 - 2016
- [j9]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:
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. 11(8): 1475-1486 (2016) - [j8]Tina Kapur, Steve Pieper, Andriy Fedorov, Jean-Christophe Fillion-Robin, Michael Halle, Lauren O'Donnell, Andras Lasso, Tamas Ungi, Csaba Pinter, Julien Finet, Sonia Pujol, Jagadeesan Jayender, Junichi Tokuda, Isaiah Norton, Raúl San José Estépar, David T. Gering, Hugo J. W. L. Aerts, Marianna Jakab, Nobuhiko Hata, Luiz Ibáñez, Daniel J. Blezek, Jim Miller, Stephen R. Aylward, W. Eric L. Grimson, Gabor Fichtinger, William M. Wells III, William E. Lorensen, William J. Schroeder, Ron Kikinis:
Increasing the impact of medical image computing using community-based open-access hackathons: The NA-MIC and 3D Slicer experience. Medical Image Anal. 33: 176-180 (2016) - [j7]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:
Q-space trajectory imaging for multidimensional diffusion MRI of the human brain. NeuroImage 135: 345-362 (2016) - [c13]Fan Zhang, Peter Savadjiev, Tom Weidong Cai, Yang Song, Ragini Verma, Carl-Fredrik Westin, Lauren J. O'Donnell:
Fiber clustering based white matter connectivity analysis for prediction of Autism Spectrum Disorder using diffusion tensor imaging. ISBI 2016: 564-567 - 2015
- [j6]Lipeng Ning, Frederik B. Laun, Yaniv Gur, Edward V. R. DiBella, Samuel Deslauriers-Gauthier, Thinhinane Megherbi, Aurobrata Ghosh, Mauro Zucchelli, Gloria Menegaz, Rutger Fick, Samuel St-Jean, Michael Paquette, Ramón Aranda, Maxime Descoteaux, Rachid Deriche, Lauren O'Donnell, Yogesh Rathi:
Sparse Reconstruction Challenge for diffusion MRI: Validation on a physical phantom to determine which acquisition scheme and analysis method to use? Medical Image Anal. 26(1): 316-331 (2015) - [p1]Lauren J. O'Donnell, Thomas Schultz:
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 2015: 299-319 - 2014
- [e1]Thomas Schultz, Gemma L. Nedjati-Gilani, Archana Venkataraman, Lauren O'Donnell, Eleftheria Panagiotaki:
Computational Diffusion MRI and Brain Connectivity, MICCAI Workshops CDMRI/MMBC, Nagoya, Japan, September 22nd, 2013. Springer 2014, ISBN 978-3-319-02474-5 [contents] - 2013
- [j5]Lauren J. O'Donnell, Alexandra J. Golby, Carl-Fredrik Westin:
Fiber clustering versus the parcellation-based connectome. NeuroImage 80: 283-289 (2013) - 2012
- [j4]Lauren J. O'Donnell, Laura Rigolo, Isaiah Norton, William M. Wells III, Carl-Fredrik Westin, Alexandra J. Golby:
fMRI-DTI modeling via landmark distance atlases for prediction and detection of fiber tracts. NeuroImage 60(1): 456-470 (2012) - [c12]Lauren J. O'Donnell, William M. Wells III, Alexandra J. Golby, Carl-Fredrik Westin:
Unbiased Groupwise Registration of White Matter Tractography. MICCAI (3) 2012: 123-130 - 2010
- [c11]Lauren J. O'Donnell, Carl-Fredrik Westin, Isaiah Norton, Stephen Whalen, Laura Rigolo, Ruth E. Propper, Alexandra J. Golby:
The Fiber Laterality Histogram: A New Way to Measure White Matter Asymmetry. MICCAI (2) 2010: 225-232
2000 – 2009
- 2009
- [j3]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:
Quantitative examination of a novel clustering method using magnetic resonance diffusion tensor tractography. NeuroImage 45(2): 370-376 (2009) - [j2]Lauren J. O'Donnell, Carl-Fredrik Westin, Alexandra J. Golby:
Tract-based morphometry for white matter group analysis. NeuroImage 45(3): 832-844 (2009) - 2008
- [c10]Arish A. Qazi, Gordon L. Kindlmann, Lauren O'Donnell, Sharon Peled, Alireza Radmanesh, Stephen Whalen, Alexandra J. Golby, Carl-Fredrik Westin:
Two-tensor streamline tractography through white matter intra-voxel fiber crossings: Assessed by fMRI. CVPR Workshops 2008: 1-8 - 2007
- [j1]Lauren J. O'Donnell, Carl-Fredrik Westin:
Automatic Tractography Segmentation Using a High-Dimensional White Matter Atlas. IEEE Trans. Medical Imaging 26(11): 1562-1575 (2007) - [c9]Lauren O'Donnell, Carl-Fredrik Westin, Alexandra J. Golby:
Tract-Based Morphometry. MICCAI (2) 2007: 161-168 - [c8]Ulas Ziyan, Mert R. Sabuncu, Lauren O'Donnell, Carl-Fredrik Westin:
Nonlinear Registration of Diffusion MR Images Based on Fiber Bundles. MICCAI (1) 2007: 351-358 - 2006
- [c7]Lauren O'Donnell, Carl-Fredrik Westin:
High-Dimensional White Matter Atlas Generation and Group Analysis. MICCAI (2) 2006: 243-251 - 2005
- [c6]Lauren O'Donnell, Carl-Fredrik Westin:
White Matter Tract Clustering and Correspondence in Populations. MICCAI 2005: 140-147 - 2004
- [c5]Lauren O'Donnell, W. Eric L. Grimson, Carl-Fredrik Westin:
Interface Detection in Diffusion Tensor MRI. MICCAI (1) 2004: 360-367 - 2003
- [c4]Simon K. Warfield, Ion-Florin Talos, Corey Kemper, Lauren O'Donnell, Carl-Fredrik Westin, William M. Wells III, Peter M. Black, Ferenc A. Jolesz, Ron Kikinis:
Capturing Brain Deformation. IS4TH 2003: 203-217 - [c3]Ion-Florin Talos, Lauren O'Donnell, Carl-Fredrik Westin, Simon K. Warfield, William M. Wells III, Seung-Schik Yoo, Lawrence P. Panych, Alexandra J. Golby, Hatsuho Mamata, Stefan S. Maier, Peter Ratiu, Charles R. G. Guttmann, Peter M. Black, Ferenc A. Jolesz, Ron Kikinis:
Diffusion Tensor and Functional MRI Fusion with Anatomical MRI for Image-Guided Neurosurgery. MICCAI (1) 2003: 407-415 - 2002
- [c2]Lauren O'Donnell, Steven Haker, Carl-Fredrik Westin:
New Approaches to Estimation of White Matter Connectivity in Diffusion Tensor MRI: Elliptic PDEs and Geodesics in a Tensor-Warped Space. MICCAI (1) 2002: 459-466 - 2001
- [c1]Lauren O'Donnell, Carl-Fredrik Westin, W. Eric L. Grimson, Juan Ruiz-Alzola, Martha Elizabeth Shenton, Ron Kikinis:
Phase-Based User-Steered Image Segmentation. MICCAI 2001: 1022-1030
Coauthor Index
[j30] [j29] [c45] [i32] [i31] [i30] [i29] [i28] [i26] [i25] [i23] [j28] [j27] [c42] [c41] [c39] [c37] [c36] [c35] [i22] [i20] [i18] [i17] [i16] [j26] [j24] [c34] [c33] [c32] [c31] [i15] [i14] [i13] [i12] [i11] [i10] [i9] [i8] [i7] [j19] [c30] [c28] [i5] [j17] [j16] [c25] [i3] [i1] [c21] [j14] [j13] [j11] [j10] [c18] [c15] [j9] [j6]
[j30] [j29] [c45] [c44] [c43] [i32] [i31] [i30] [i29] [i28] [i27] [i26] [i25] [i23] [j28] [j27] [c42] [c41] [c40] [c39] [c38] [c37] [c36] [c35] [i22] [i21] [i20] [i19] [i18] [i17] [i16] [j26] [j25] [j23] [j22] [c34] [c33] [c32] [c31] [i15] [i14] [i13] [i12] [i11] [i10] [i9] [i8] [i7] [j20] [j19] [j18] [c30] [c29] [c28] [i6] [i5] [i4] [j17] [j16] [c27] [c26] [c25] [i3] [i2] [i1] [j15] [c24] [c23] [c22] [c21] [j14] [j13] [j12] [j11] [j10] [c20] [c19] [c18] [c17] [c15] [j9] [c13]
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