Paul A. Yushkevich

136 papers A* 5A 2Journal 53Unranked 72

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	ICHOR: A Robust Representation Learning Approach for ASL CBF Maps with Self-Supervised Masked Autoencoders. CoRR Xavier Beltran-Urbano, Yiran Li, Xinglin Zeng, Katie R. Jobson, Manuel Taso, Christopher A. Brown, David A. Wolk, Corey T. McMillan, Ilya M. Nashrallah, Paul A. Yushkevich, Ze Wang, John A. Detre, Sudipto Dolui
2025	J	`jnl`	Development of an isotropic segmentation model for medial temporal lobe subregions on anisotropic MRI atlas using implicit neural representation. CoRR Yue Li, Pulkit Khandelwal, Rohit Jena, Long Xie, Michael Tran Duong, Amanda Denning, Christopher A. Brown, Laura E. M. Wisse, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2025	J	`jnl`	Nearly isotropic segmentation for medial temporal lobe subregions in multi-modality MRI. CoRR Yue Li, Pulkit Khandelwal, Long Xie, Laura E. M. Wisse, Nidhi Mundada, Christopher A. Brown, Emily McGrew, Amanda Denning, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2025	—	`conf`	Streamlining 4D Cardiac Image Workflows: Open-Source Tools for Segmentation, Registration, and Visualization. FIMH (2) Jilei Hao, Paul A. Yushkevich, Ningjun J. Dong, Silvani Amin, Zaiyang Guo, Natalie Yushkevich, Ankush Aggarwal, Alison M. Pouch
2025	—	`conf`	VIOLET: Volumetric Image registration via Optimization and Learning for Efficient image Translation. SASHIMI@MICCAI 2025 Pulkit Khandelwal, Michael Tran Duong, Lisa Levorse, Sydney Lim, Nathaniel Gauthier, Ved Shenoy, Eunice Chung, Amanda Denning, Alejandra Bahena, Winifred Trotman, Christopher Olm, Hamsanandini Radhakrishnan, Ranjit Ittyerah, Karthik Prabhakaran, Gabor Mizsei, Theresa Schuck, John L. Robinson, Daniel T. Ohm, Jeffrey S. Phillips, John A. Detre, Edward B. Lee, David J. Irwin, Corey T. McMillan, M. Dylan Tisdall, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2024	—	`conf`	Surface-Based Parcellation and Vertex-wise Analysis of Ultra High-resolution ex vivo 7 tesla MRI in Alzheimer's disease and related dementias. MLCN@MICCAI Pulkit Khandelwal, Michael Tran Duong, Lisa Levorse, Constanza Fuentes, Amanda Denning, Winifred Trotman, Ranjit Ittyerah, Alejandra Bahena, Theresa Schuck, Marianna Gabrielyan, Karthik Prabhakaran, Daniel T. Ohm, Gabor Mizsei, John Robinson, Mónica Muñoz López, John A. Detre, Edward B. Lee, David J. Irwin, Corey McMillan, M. Dylan Tisdall, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2024	J	`jnl`	Surface-based parcellation and vertex-wise analysis of ultra high-resolution ex vivo 7 tesla MRI in neurodegenerative diseases. CoRR Pulkit Khandelwal, Michael Tran Duong, Constanza Fuentes, Amanda Denning, Winifred Trotman, Ranjit Ittyerah, Alejandra Bahena, Theresa Schuck, Marianna Gabrielyan, Karthik Prabhakaran, Daniel T. Ohm, Gabor Mizsei, John L. Robinson, Mónica Muñoz López, John A. Detre, Edward B. Lee, David J. Irwin, Corey McMillan, M. Dylan Tisdall, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2023	J	`jnl`	Automated deep learning segmentation of high-resolution 7 T ex vivo MRI for quantitative analysis of structure-pathology correlations in neurodegenerative diseases. CoRR Pulkit Khandelwal, Michael Tran Duong, Shokufeh Sadaghiani, Sydney Lim, Amanda Denning, Eunice Chung, Sadhana Ravikumar, Sanaz Arezoumandan, Claire Peterson, Madigan L. Bedard, Noah Capp, Ranjit Ittyerah, Elyse Migdal, Grace Choi, Emily Kopp, Bridget Loja, Eusha Hasan, Jiacheng Li, Karthik Prabhakaran, Gabor Mizsei, Marianna Gabrielyan, Theresa Schuck, Winifred Trotman, John L. Robinson, Daniel T. Ohm, Edward B. Lee, John Q. Trojanowski, Corey McMillan, Murray Grossman, David J. Irwin, John A. Detre, M. Dylan Tisdall, Sandhitsu R. Das, Laura E. M. Wisse, David A. Wolk, Paul A. Yushkevich
2023	J	`jnl`	Deep label fusion: A generalizable hybrid multi-atlas and deep convolutional neural network for medical image segmentation. Medical Image Anal. Long Xie, Laura E. M. Wisse, Jiancong Wang, Sadhana Ravikumar, Pulkit Khandelwal, Trevor Glenn, Anica Luther, Sydney Lim, David A. Wolk, Paul A. Yushkevich
2023	—	`conf`	Image-to-Image Translation Between Tau Pathology and Neuronal Metabolism PET in Alzheimer Disease with Multi-domain Contrastive Learning. MLCN@MICCAI Michael Tran Duong, Sandhitsu R. Das, Pulkit Khandelwal, Xueying Lyu, Long Xie, Paul A. Yushkevich, David A. Wolk, Ilya M. Nasrallah
2023	—	`conf`	Improved Segmentation of Deep Sulci in Cortical Gray Matter Using a Deep Learning Framework Incorporating Laplace's Equation. IPMI Sadhana Ravikumar, Ranjit Ittyerah, Sydney Lim, Long Xie, Sandhitsu R. Das, Pulkit Khandelwal, Laura E. M. Wisse, Madigan L. Bedard, John L. Robinson, Terry Schuck, Murray Grossman, John Q. Trojanowski, Edward B. Lee, M. Dylan Tisdall, Karthik Prabhakaran, John A. Detre, David J. Irwin, Winifred Trotman, Gabor Mizsei, Emilio Artacho-Pérula, Maria Mercedes Iñiguez de Onzoño Martin, María del Mar Arroyo Jiménez, Mónica Muñoz López, Francisco Javier Molina Romero, Maria del Pilar Marcos Rabal, Sandra Cebada Sánchez, José Carlos Delgado González, Carlos de la Rosa-Prieto, Marta Córcoles Parada, David A. Wolk, Ricardo Insausti, Paul A. Yushkevich
2023	J	`jnl`	Improved Segmentation of Deep Sulci in Cortical Gray Matter Using a Deep Learning Framework Incorporating Laplace's Equation. CoRR Sadhana Ravikumar, Ranjit Ittyerah, Sydney Lim, Long Xie, Sandhitsu R. Das, Pulkit Khandelwal, Laura E. M. Wisse, Madigan L. Bedard, John L. Robinson, Terry Schuck, Murray Grossman, John Q. Trojanowski, Edward B. Lee, M. Dylan Tisdall, Karthik Prabhakaran, John A. Detre, David J. Irwin, Winifred Trotman, Gabor Mizsei, Emilio Artacho-Pérula, Maria Mercedes Iñiguez de Onzoño Martin, María del Mar Arroyo Jiménez, Mónica Muñoz López, Francisco Javier Molina Romero, Maria del Pilar Marcos Rabal, Sandra Cebada Sánchez, José Carlos Delgado González, Carlos de la Rosa-Prieto, Marta Córcoles Parada, David A. Wolk, Ricardo Insausti, Paul A. Yushkevich
2023	—	`conf`	Integrating color deconvolution thresholding and weakly supervised learning for automated segmentation of neurofibrillary tangle and neuropil threads. Digital and Computational Pathology Hyung S. Roh, David J. Irwin, Mónica Muñoz López, Maria Mercedes Iñiguez de Onzoño Martin, Ranjit Ittyerah, Sydney Lim, Madigan L. Bedard, John L. Robinson, Theresa Schuck, Emilio Artacho-Pérula, María del Mar Arroyo Jiménez, Maria del Pilar Marcos Rabal, Francisco Javier Molina Romero, Sandra Cebada Sánchez, José Carlos Delgado González, Carlos de la Rosa-Prieto, Marta Córcoles Parada, Edward B. Lee, Daniel T. Ohm, Laura E. M. Wisse, David A. Wolk, James C. Gee, Ricardo Insausti, Paul A. Yushkevich, Min Chen
2023	J	`jnl`	Regional Deep Atrophy: a Self-Supervised Learning Method to Automatically Identify Regions Associated With Alzheimer's Disease Progression From Longitudinal MRI. CoRR Mengjin Dong, Long Xie, Sandhitsu R. Das, Jiancong Wang, Laura E. M. Wisse, Robin DeFlores, David A. Wolk, Paul A. Yushkevich
2022	J	`jnl`	Fully Automated 3D Segmentation and Diffeomorphic Medial Modeling of the Left Ventricle Mitral Valve Complex in Ischemic Mitral Regurgitation. Medical Image Anal. Ahmed H. Aly, Pulkit Khandelwal, Abdullah H. Aly, Takayuki Kawashima, Kazuki Mori, Yoshiaki Saito, Judy Hung, Joseph H. Gorman III, Alison M. Pouch, Robert C. Gorman, Paul A. Yushkevich
2022	A*	`conf`	NODEO: A Neural Ordinary Differential Equation Based Optimization Framework for Deformable Image Registration. CVPR Yifan Wu, Tom Z. Jiahao, Jiancong Wang, Paul A. Yushkevich, M. Ani Hsieh, James C. Gee
2021	—	`conf`	Deep Label Fusion: A 3D End-To-End Hybrid Multi-atlas Segmentation and Deep Learning Pipeline. IPMI Long Xie, Laura E. M. Wisse, Jiancong Wang, Sadhana Ravikumar, Trevor Glenn, Anica Luther, Sydney Lim, David A. Wolk, Paul A. Yushkevich
2021	J	`jnl`	Deep Label Fusion: A 3D End-to-End Hybrid Multi-Atlas Segmentation and Deep Learning Pipeline. CoRR Long Xie, Laura E. M. Wisse, Jiancong Wang, Sadhana Ravikumar, Trevor Glenn, Anica Luther, Sydney Lim, David A. Wolk, Paul A. Yushkevich
2021	J	`jnl`	DeepAtrophy: Teaching a neural network to detect progressive changes in longitudinal MRI of the hippocampal region in Alzheimer's disease. NeuroImage Mengjin Dong, Long Xie, Sandhitsu R. Das, Jiancong Wang, Laura E. M. Wisse, Robin DeFlores, David A. Wolk, Paul A. Yushkevich
2021	J	`jnl`	Deformable Image Registration using Neural ODEs. CoRR Yifan Wu, Tom Z. Jiahao, Jiancong Wang, Paul A. Yushkevich, James C. Gee, M. Ani Hsieh
2021	J	`jnl`	Gray Matter Segmentation in Ultra High Resolution 7 Tesla ex vivo T2w MRI of Human Brain Hemispheres. CoRR Pulkit Khandelwal, Shokufeh Sadaghiani, Sadhana Ravikumar, Sydney Lim, Sanaz Arezoumandan, Claire Peterson, Eunice Chung, Madigan L. Bedard, Noah Capp, Ranjit Ittyerah, Elyse Migdal, Grace Choi, Emily Kopp, Bridget Loja, Eusha Hasan, Jiacheng Li, Karthik Prabhakaran, Gabor Mizsei, Marianna Gabrielyan, Theresa Schuck, John L. Robinson, Daniel T. Ohm, Edward B. Lee, John Q. Trojanowski, Corey McMillan, Murray Grossman, David J. Irwin, M. Dylan Tisdall, Sandhitsu R. Das, Laura E. M. Wisse, David A. Wolk, Paul A. Yushkevich
2021	—	`conf`	Unfolding the Medial Temporal Lobe Cortex to Characterize Neurodegeneration Due to Alzheimer's Disease Pathology Using Ex vivo Imaging. MLCN@MICCAI Sadhana Ravikumar, Laura E. M. Wisse, Sydney Lim, David J. Irwin, Ranjit Ittyerah, Long Xie, Sandhitsu R. Das, Edward B. Lee, M. Dylan Tisdall, Karthik Prabhakaran, John A. Detre, Gabor Mizsei, John Q. Trojanowski, John L. Robinson, Theresa Schuck, Murray Grossman, Emilio Artacho-Pérula, Maria Mercedes Iñiguez de Onzoño Martin, María del Mar Arroyo Jiménez, Mónica Muñoz López, Francisco Javier Molina Romero, Maria del Pilar Marcos Rabal, Sandra Cebada Sánchez, José Carlos Delgado González, Carlos de la Rosa-Prieto, Marta Córcoles Parada, David A. Wolk, Ricardo Insausti, Paul A. Yushkevich
2020	—	`conf`	3D Mapping of TAU Neurofibrillary Tangle Pathology in the Human Medial Temporal Lobe. ISBI Paul A. Yushkevich, Maria Mercedes Iñiguez de Onzoño Martin, Ranjit Ittyerah, Sydney Lim, Madigan Lavery, Jiancong Wang, Alex Ling Yu Hung, Nicolas Vergnet, Sadhana Ravikumar, Long Xie, Mengjin Dong, Robin DeFlores, Salena Cui, Lauren McCollum, Daniel T. Ohm, John L. Robinson, Theresa Schuck, Murray Grossman, M. Dylan Tisdall, Karthik Prabhakaran, Gabor Mizsei, Sandhitsu R. Das, Emilio Artacho-Pérula, María del Mar Arroyo Jiménez, Mónica Muñoz López, Maria del Pilar Marcos Rabal, Francisco Javier Molina Romero, Edward B. Lee, John Q. Trojanowski, Laura E. M. Wisse, David A. Wolk, David J. Irwin, Ricardo Insausti
2020	J	`jnl`	ANHIR: Automatic Non-Rigid Histological Image Registration Challenge. IEEE Trans. Medical Imaging Jirí Borovec, Jan Kybic, Ignacio Arganda-Carreras, Dmitry V. Sorokin, Gloria Bueno, Alexander V. Khvostikov, Spyridon Bakas, Eric I-Chao Chang, Stefan Heldmann, Kimmo Kartasalo, Leena Latonen, Johannes Lotz, Michelle Noga, Sarthak Pati, Kumaradevan Punithakumar, Pekka Ruusuvuori, Andrzej Skalski, Nazanin Tahmasebi, Masi Valkonen, Ludovic Venet, Yizhe Wang, Nick Weiss, Marek Wodzinski, Yu Xiang, Yan Xu, Yan Yan, Paul A. Yushkevich, Shengyu Zhao, Arrate Muñoz-Barrutia
2020	—	`conf`	Automated Meshing of Anatomical Shapes for Deformable Medial Modeling: Application to the Placenta in 3D Ultrasound. ISBI Alison M. Pouch, Paul A. Yushkevich, Abdullah H. Aly, Alexander H. F. Woltersom, Edidiong Okon, Ahmed H. Aly, Natalie Yushkevich, Shobhana Parameshwaran, Jiancong Wang, Baris U. Oguz, James C. Gee, Ipek Oguz, Nadav Schwartz
2020	—	`conf`	Building an Ex Vivo Atlas of the Earliest Brain Regions Affected by Alzheimer's Disease Pathology. ISBI Sadhana Ravikumar, Laura E. M. Wisse, Ranjit Ittyerah, Sydney Lim, Madigan Lavery, Long Xie, John L. Robinson, Theresa Schuck, Murray Grossman, Edward B. Lee, M. Dylan Tisdall, Karthik Prabhakaran, John A. Detre, Sandhitsu R. Das, Gabor Mizsei, Emilio Artacho-Pérula, Maria Mercedes Iñiguez de Onzoño Martin, María del Mar Arroyo Jiménez, Mónica Muñoz López, Francisco Javier Molina Romero, Maria del Pilar Marcos Rabal, David J. Irwin, John Q. Trojanowski, David A. Wolk, Ricardo Insausti, Paul A. Yushkevich
2020	J	`jnl`	DeepAtrophy: Teaching a Neural Network to Differentiate Progressive Changes from Noise on Longitudinal MRI in Alzheimer's Disease. CoRR Mengjin Dong, Long Xie, Sandhitsu R. Das, Jiancong Wang, Laura E. M. Wisse, Robin DeFlores, David A. Wolk, Paul A. Yushkevich
2020	—	`conf`	Domain Generalizer: A Few-Shot Meta Learning Framework for Domain Generalization in Medical Imaging. DART/DCL@MICCAI Pulkit Khandelwal, Paul A. Yushkevich
2020	J	`jnl`	Domain Generalizer: A Few-shot Meta Learning Framework for Domain Generalization in Medical Imaging. CoRR Pulkit Khandelwal, Paul A. Yushkevich
2019	J	`jnl`	Accurate and Robust Alignment of Variable-stained Histologic Images Using a General-purpose Greedy Diffeomorphic Registration Tool. CoRR Ludovic Venet, Sarthak Pati, Paul A. Yushkevich, Spyridon Bakas
2019	J	`jnl`	Barnes-Hut Approximation for Point SetGeodesic Shooting. CoRR Jiancong Wang, Long Xie, Paul A. Yushkevich, James C. Gee
2019	—	`conf`	Diffeomorphic Medial Modeling. IPMI Paul A. Yushkevich, Ahmed H. Aly, Jiancong Wang, Long Xie, Robert C. Gorman, Laurent Younes, Alison M. Pouch
2019	J	`jnl`	Diffeomorphic Medial Modeling. CoRR Paul A. Yushkevich, Ahmed H. Aly, Jiancong Wang, Long Xie, Robert C. Gorman, Alison M. Pouch, Laurent Younes
2019	—	`conf`	Facilitating Manual Segmentation of 3D Datasets Using Contour And Intensity Guided Interpolation. ISBI Sadhana Ravikumar, Laura E. M. Wisse, Yang Gao, Guido Gerig, Paul A. Yushkevich
2019	—	`conf`	Improving Multi-atlas Segmentation by Convolutional Neural Network Based Patch Error Estimation. MICCAI (3) Long Xie, Jiancong Wang, Mengjin Dong, David A. Wolk, Paul A. Yushkevich
2019	—	`ed.`	Information Processing in Medical Imaging - 26th International Conference, IPMI 2019, Hong Kong, China, June 2-7, 2019, Proceedings IPMI Albert C. S. Chung, James C. Gee, Paul A. Yushkevich, Siqi Bao
2019	—	`conf`	The Cancer Imaging Phenomics Toolkit (CaPTk): Technical Overview. BrainLes@MICCAI (2) Sarthak Pati, Ashish Singh, Saima Rathore, Aimilia Gastounioti, Mark Bergman, Phuc Ngo, Sung Min Ha, Dimitrios Bounias, James Minock, Grayson Murphy, Hongming Li, Amit Bhattarai, Adam Wolf, Patmaa Sridaran, Ratheesh Kalarot, Hamed Akbari, Aristeidis Sotiras, Siddhesh P. Thakur, Ragini Verma, Russell T. Shinohara, Paul A. Yushkevich, Yong Fan, Despina Kontos, Christos Davatzikos, Spyridon Bakas
2019	J	`jnl`	User-Guided Segmentation of Multi-modality Medical Imaging Datasets with ITK-SNAP. Neuroinformatics Paul A. Yushkevich, Artem Pashchinskiy, Ipek Oguz, Suyash Mohan, J. Eric Schmitt, Joel M. Stein, Dzenan Zukic, Jared Vicory, Matthew McCormick, Natalie Yushkevich, Nadav Schwartz, Yang Gao, Guido Gerig
2018	—	`conf`	Characterizing Anatomical Variability and Alzheimer's Disease Related Cortical Thinning in the Medial Temporal Lobe Using Graph-Based Groupwise Registration and Point Set Geodesic Shooting. ShapeMI@MICCAI Long Xie, Laura E. M. Wisse, Sandhitsu R. Das, Ranjit Ittyerah, Jiancong Wang, David A. Wolk, Paul A. Yushkevich
2018	J	`jnl`	Characterizing the human hippocampus in aging and Alzheimer's disease using a computational atlas derived from ex vivo MRI and histology. Proc. Natl. Acad. Sci. USA Daniel H. Adler, Laura E. M. Wisse, Ranjit Ittyerah, John Pluta, Song-Lin Ding, Long Xie, Jiancong Wang, Salmon Kadivar, John L. Robinson, Theresa Schuck, John Q. Trojanowski, Murray Grossman, John A. Detre, Mark A. Elliott, Jon B. Toledo, Weixia Liu, Stephen Pickup, Michael I. Miller, Sandhitsu R. Das, David A. Wolk, Paul A. Yushkevich
2018	—	`conf`	Combining Deep Learning and Multi-atlas Label Fusion for Automated Placenta Segmentation from 3DUS. DATRA/PIPPI@MICCAI Baris U. Oguz, Jiancong Wang, Natalie Yushkevich, Alison M. Pouch, James C. Gee, Paul A. Yushkevich, Nadav Schwartz, Ipek Oguz
2018	—	`conf`	Semi-automated Image Segmentation of the Midsystolic Left Ventricular Mitral Valve Complex in Ischemic Mitral Regurgitation. STACOM@MICCAI Ahmed H. Aly, Abdullah H. Aly, Mahmoud Elrakhawy, Kirlos Haroun, Luis Prieto-Riascos, Robert C. Gorman Jr., Natalie Yushkevich, Yoshiaki Saito, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich, Alison M. Pouch
2017	J	`jnl`	A tract-specific approach to assessing white matter in preterm infants. NeuroImage Diliana Pecheva, Paul A. Yushkevich, Dafnis Batalle, Emer J. Hughes, Paul Aljabar, Julia Wurie, Joseph V. Hajnal, A. David Edwards, Daniel C. Alexander, Serena J. Counsell, Hui Zhang
2017	—	`conf`	Dice Overlap Measures for Objects of Unknown Number: Application to Lesion Segmentation. BrainLes@MICCAI Ipek Oguz, Aaron Carass, Dzung L. Pham, Snehashis Roy, Nagesh Subbana, Peter A. Calabresi, Paul A. Yushkevich, Russell T. Shinohara, Jerry L. Prince
2017	—	`conf`	Gradient Boosted Trees for Corrective Learning. MLMI@MICCAI Baris U. Oguz, Russell T. Shinohara, Paul A. Yushkevich, Ipek Oguz
2017	—	`conf`	Image Segmentation and Modeling of the Pediatric Tricuspid Valve in Hypoplastic Left Heart Syndrome. FIMH Alison M. Pouch, Ahmed H. Aly, Andras Lasso, Alexander V. Nguyen, Adam B. Scanlan, Francis X. McGowan, Gabor Fichtinger, Robert C. Gorman, Joseph H. Gorman III, Paul A. Yushkevich, Matthew A. Jolley
2017	—	`conf`	Joint Intensity Fusion Image Synthesis Applied to Multiple Sclerosis Lesion Segmentation. BrainLes@MICCAI Greg M. Fleishman, Alessandra Valcarcel, Dzung L. Pham, Snehashis Roy, Peter A. Calabresi, Paul A. Yushkevich, Russell T. Shinohara, Ipek Oguz
2017	J	`jnl`	Multi-template analysis of human perirhinal cortex in brain MRI: Explicitly accounting for anatomical variability. NeuroImage Long Xie, John Pluta, Sandhitsu R. Das, Laura E. M. Wisse, Hongzhi Wang, Lauren Mancuso, Dasha Kliot, Brian B. Avants, Song-Lin Ding, José V. Manjón, David A. Wolk, Paul A. Yushkevich
2017	—	`conf`	Multiple Sclerosis Lesion Segmentation Using Joint Label Fusion. Patch-MI@MICCAI Mengjin Dong, Ipek Oguz, Nagesh Subbana, Peter A. Calabresi, Russell T. Shinohara, Paul A. Yushkevich
2017	—	`conf`	Spatiotemporal Segmentation and Modeling of the Mitral Valve in Real-Time 3D Echocardiographic Images. MICCAI (1) Alison M. Pouch, Ahmed H. Aly, Eric Lai, Natalie Yushkevich, Rutger H. Stoffers, Joseph H. Gorman IV, Albert T. Cheung, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich
2016	—	`conf`	A framework for informing segmentation of in vivo MRI with information derived from ex vivo imaging: Application in the medial temporal lobe. EMBC Paul A. Yushkevich, Laura E. M. Wisse, Daniel H. Adler, Ranjit Ittyerah, John Pluta, John L. Robinson, Theresa Schuck, John Q. Trojanowski, Murray Grossman, John A. Detre, Mark A. Elliott, Jon B. Toledo, Weixia Liu, Stephen Pickup, Sandhitsu R. Das, David A. Wolk
2016	—	`conf`	Accounting for the Confound of Meninges in Segmenting Entorhinal and Perirhinal Cortices in T1-Weighted MRI. MICCAI (2) Long Xie, Laura E. M. Wisse, Sandhitsu R. Das, Hongzhi Wang, David A. Wolk, José V. Manjón, Paul A. Yushkevich
2016	—	`conf`	Globally Optimal Label Fusion with Shape Priors. MICCAI (2) Ipek Oguz, Satyananda Kashyap, Hongzhi Wang, Paul A. Yushkevich, Milan Sonka
2016	—	`conf`	ITK-SNAP: An interactive tool for semi-automatic segmentation of multi-modality biomedical images. EMBC Paul A. Yushkevich, Yang Gao, Guido Gerig
2016	—	`conf`	Probabilistic Atlas of the Human Hippocampus Combining Ex Vivo MRI and Histology. MICCAI (3) Daniel H. Adler, Ranjit Ittyerah, John Pluta, Stephen Pickup, Weixia Liu, David A. Wolk, Paul A. Yushkevich
2016	—	`conf`	Supervoxel-Based Hierarchical Markov Random Field Framework for Multi-atlas Segmentation. Patch-MI@MICCAI Ning Yu, Hongzhi Wang, Paul A. Yushkevich
2015	J	`jnl`	Assessing atrophy measurement techniques in dementia: Results from the MIRIAD atrophy challenge. NeuroImage David M. Cash, Chris Frost, Leonardo O. Iheme, Devrim Ünay, Melek Kandemir, Jurgen Fripp, Olivier Salvado, Pierrick Bourgeat, Martin Reuter, Bruce Fischl, Marco Lorenzi, Giovanni B. Frisoni, Xavier Pennec, Ronald K. Pierson, Jeffrey L. Gunter, Matthew L. Senjem, Clifford R. Jack Jr., Nicolas Guizard, Vladimir S. Fonov, D. Louis Collins, Marc Modat, M. Jorge Cardoso, Kelvin K. Leung, Hongzhi Wang, Sandhitsu R. Das, Paul A. Yushkevich, Ian B. Malone, Nick C. Fox, Jonathan M. Schott, Sébastien Ourselin
2015	J	`jnl`	Medially constrained deformable modeling for segmentation of branching medial structures: Application to aortic valve segmentation and morphometry. Medical Image Anal. Alison M. Pouch, Sijie Tian, Manabu Takabe, Jiefu Yuan, Robert C. Gorman Jr., Albert T. Cheung, Hongzhi Wang, Benjamin M. Jackson, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich
2015	—	`conf`	Multi-atlas label fusion with augmented atlases for fast and accurate segmentation of cardiac MR images. ISBI Long Xie, Suman Sedai, Xi Liang, Colin B. Compas, Hongzhi Wang, Paul A. Yushkevich, Tanveer F. Syeda-Mahmood
2015	J	`jnl`	Quantitative comparison of 21 protocols for labeling hippocampal subfields and parahippocampal subregions in in vivo MRI: Towards a harmonized segmentation protocol. NeuroImage Paul A. Yushkevich, Robert S. C. Amaral, Jean C. Augustinack, Andrew R. Bender, Jeffrey D. Bernstein, Marina Boccardi, Martina Bocchetta, Alison C. Burggren, Valerie A. Carr, M. Mallar Chakravarty, Gaël Chételat, Ana M. Daugherty, Lila Davachi, Song-Lin Ding, Arne D. Ekstrom, Mirjam I. Geerlings, Abdul Hassan, Yushan Huang, Juan Eugenio Iglesias, Renaud La Joie, Geoffrey A. Kerchner, Karen F. LaRocque, Laura A. Libby, Nikolai Malykhin, Susanne G. Mueller, Rosanna K. Olsen, Daniela J. Palombo, Mansi B. Parekh
2014	—	`conf`	Automatic Clustering and Thickness Measurement of Anatomical Variants of the Human Perirhinal Cortex. MICCAI (3) Long Xie, John Pluta, Hongzhi Wang, Sandhitsu R. Das, Lauren Mancuso, Dasha Kliot, Brian B. Avants, Song-Lin Ding, David A. Wolk, Paul A. Yushkevich
2014	J	`jnl`	Fully automatic segmentation of the mitral leaflets in 3D transesophageal echocardiographic images using multi-atlas joint label fusion and deformable medial modeling. Medical Image Anal. Alison M. Pouch, Hongzhi Wang, Manabu Takabe, Benjamin M. Jackson, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich, Chandra M. Sehgal
2014	J	`jnl`	Histology-derived volumetric annotation of the human hippocampal subfields in postmortem MRI. NeuroImage Daniel H. Adler, John Pluta, Salmon Kadivar, Caryne Craige, James C. Gee, Brian B. Avants, Paul A. Yushkevich
2014	—	`conf`	Segmentation of the Aortic Valve Apparatus in 3D Echocardiographic Images: Deformable Modeling of a Branching Medial Structure. STACOM Alison M. Pouch, Sijie Tian, Manabu Takabe, Hongzhi Wang, Jiefu Yuan, Albert T. Cheung, Benjamin M. Jackson, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich
2013	—	`conf`	Automated Segmentation and Geometrical Modeling of the Tricuspid Aortic Valve in 3D Echocardiographic Images. MICCAI (1) Alison M. Pouch, Hongzhi Wang, Manabu Takabe, Benjamin M. Jackson, Chandra M. Sehgal, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich
2013	—	`conf`	Deformable Modeling Using a 3D Boundary Representation with Quadratic Constraints on the Branching Structure of the Blum Skeleton. IPMI Paul A. Yushkevich, Hui Gary Zhang
2013	—	`conf`	Groupwise Segmentation with Multi-atlas Joint Label Fusion. MICCAI (1) Hongzhi Wang, Paul A. Yushkevich
2013	J	`jnl`	Multi-Atlas Segmentation with Joint Label Fusion. IEEE Trans. Pattern Anal. Mach. Intell. Hongzhi Wang, Jung Wook Suh, Sandhitsu R. Das, John Pluta, Caryne Craige, Paul A. Yushkevich
2013	—	`conf`	Multi-atlas Segmentation with Robust Label Transfer and Label Fusion. IPMI Hongzhi Wang, Alison M. Pouch, Manabu Takabe, Benjamin M. Jackson, Joseph H. Gorman III, Robert C. Gorman, Paul A. Yushkevich
2013	—	`conf`	Multi-atlas Segmentation without Registration: A Supervoxel-Based Approach. MICCAI (3) Hongzhi Wang, Paul A. Yushkevich
2013	J	`jnl`	Multi-atlas segmentation with joint label fusion and corrective learning - an open source implementation. Frontiers Neuroinformatics Hongzhi Wang, Paul A. Yushkevich
2012	—	`conf`	Dependency prior for multi-atlas label fusion. ISBI Hongzhi Wang, Paul A. Yushkevich
2012	A*	`conf`	From label fusion to correspondence fusion: A new approach to unbiased groupwise registration. CVPR Paul A. Yushkevich, Hongzhi Wang, John Pluta, Brian B. Avants
2012	—	`conf`	Guiding Automatic Segmentation with Multiple Manual Segmentations. MICCAI (2) Hongzhi Wang, Paul A. Yushkevich
2012	J	`jnl`	Measuring longitudinal change in the hippocampal formation from in vivo high-resolution T2-weighted MRI. NeuroImage Sandhitsu R. Das, Brian B. Avants, John Pluta, Hongzhi Wang, Jung Wook Suh, Michael W. Weiner, Susanne G. Mueller, Paul A. Yushkevich
2012	—	`conf`	Reconstruction of the human hippocampus in 3D from histology and high-resolution ex-vivo MRI. ISBI Daniel H. Adler, Alex Yang Liu, John Pluta, Salmon Kadivar, Sylvia Orozco, Hongzhi Wang, James C. Gee, Brian B. Avants, Paul A. Yushkevich
2012	A*	`conf`	Spatial bias in multi-atlas based segmentation. CVPR Hongzhi Wang, Paul A. Yushkevich
2011	J	`jnl`	A learning-based wrapper method to correct systematic errors in automatic image segmentation: Consistently improved performance in hippocampus, cortex and brain segmentation. NeuroImage Hongzhi Wang, Sandhitsu R. Das, Jung Wook Suh, Murat Altinay, John Pluta, Caryne Craige, Brian B. Avants, Paul A. Yushkevich
2011	J	`jnl`	Heterogeneity of functional activation during memory encoding across hippocampal subfields in temporal lobe epilepsy. NeuroImage Sandhitsu R. Das, Dawn Mechanic-Hamilton, John Pluta, Marc Korczykowski, John A. Detre, Paul A. Yushkevich
2011	—	`conf`	Hippocampus segmentation using a stable maximum likelihood classifier ensemble algorithm. ISBI Hongzhi Wang, Jung Wook Suh, Sandhitsu R. Das, Murat Altinay, John Pluta, Paul A. Yushkevich
2011	—	`conf`	Optimal Weights for Multi-atlas Label Fusion. IPMI Hongzhi Wang, Jung Wook Suh, John Pluta, Murat Altinay, Paul A. Yushkevich
2011	A*	`conf`	Regression-based label fusion for multi-atlas segmentation. CVPR Hongzhi Wang, Jung Wook Suh, Sandhitsu R. Das, John Pluta, Murat Altinay, Paul A. Yushkevich
2010	—	`conf`	A Computational White Matter Atlas for Aging with Surface-Based Representation of Fasciculi. WBIR Hui Zhang, Paul A. Yushkevich, Daniel Rueckert, James C. Gee
2010	J	`jnl`	A tract-specific framework for white matter morphometry combining macroscopic and microscopic tract features. Medical Image Anal. Hui Zhang, Suyash P. Awate, Sandhitsu R. Das, John H. Woo, Elias R. Melhem, James C. Gee, Paul A. Yushkevich
2010	—	`conf`	Automatic Cardiac MRI Segmentation Using a Biventricular Deformable Medial Model. MICCAI (1) Hui Sun, Alejandro F. Frangi, Hongzhi Wang, Federico Sukno, Catalina Tobon-Gomez, Paul A. Yushkevich
2010	J	`jnl`	Bias in estimation of hippocampal atrophy using deformation-based morphometry arises from asymmetric global normalization: An illustration in ADNI 3 T MRI data. NeuroImage Paul A. Yushkevich, Brian B. Avants, Sandhitsu R. Das, John Pluta, Murat Altinay, Caryne Craige
2010	J	`jnl`	Cerebral cortical folding analysis with multivariate modeling and testing: Studies on gender differences and neonatal development. NeuroImage Suyash P. Awate, Paul A. Yushkevich, Zhuang Song, Daniel J. Licht, James C. Gee
2010	J	`jnl`	N4ITK: Improved N3 Bias Correction. IEEE Trans. Medical Imaging Nicholas J. Tustison, Brian B. Avants, Philip A. Cook, Yuanjie Zheng, Alexander Egan, Paul A. Yushkevich, James C. Gee
2010	J	`jnl`	Nearly automatic segmentation of hippocampal subfields in in vivo focal T2-weighted MRI. NeuroImage Paul A. Yushkevich, Hongzhi Wang, John Pluta, Sandhitsu R. Das, Caryne Craige, Brian B. Avants, Michael W. Weiner, Susanne G. Mueller
2010	—	`conf`	Shape-based semi-automatic hippocampal subfield segmentation with learning-based bias removal. ISBI Hongzhi Wang, Sandhitsu R. Das, John Pluta, Caryne Craige, Murat Altinay, Michael Weiner, Susanne G. Mueller, Paul A. Yushkevich
2010	J	`jnl`	The optimal template effect in hippocampus studies of diseased populations. NeuroImage Brian B. Avants, Paul A. Yushkevich, John Pluta, David Minkoff, Marc Korczykowski, John A. Detre, James C. Gee
2009	—	`conf`	A Tract-Specific Framework for White Matter Morphometry Combining Macroscopic and Microscopic Tract Features. MICCAI (1) Hui Zhang, Suyash P. Awate, Sandhitsu R. Das, John H. Woo, Elias R. Melhem, James C. Gee, Paul A. Yushkevich
2009	J	`jnl`	A high-resolution computational atlas of the human hippocampus from postmortem magnetic resonance imaging at 9.4 T. NeuroImage Paul A. Yushkevich, Brian B. Avants, John Pluta, Sandhitsu R. Das, David Minkoff, Dawn Mechanic-Hamilton, Simon Glynn, Stephen Pickup, Weixia Liu, James C. Gee, Murray Grossman, John A. Detre
2009	J	`jnl`	Continuous medial representation of brain structures using the biharmonic PDE. NeuroImage Paul A. Yushkevich
2009	—	`conf`	Gender Differences in Cerebral Cortical Folding: Multivariate Complexity-Shape Analysis with Insights into Handling Brain-Volume Differences. MICCAI (1) Suyash P. Awate, Paul A. Yushkevich, Daniel J. Licht, James C. Gee
2009	—	`conf`	Multivariate High-Dimensional Cortical Folding Analysis, Combining Complexity and Shape, in Neonates with Congenital Heart Disease. IPMI Suyash P. Awate, Paul A. Yushkevich, Zhuang Song, Daniel J. Licht, James C. Gee
2009	—	`conf`	Tensor-Based Morphometry of Fibrous Structures with Application to Human Brain White Matter. MICCAI (1) Hui Zhang, Paul A. Yushkevich, Daniel Rueckert, James C. Gee
2009	—	`conf`	Ventricular Wall Thickness Analysis in Acute Myocardial Infarction and Hypertrophic Cardiomyopathy. ISBI Hui Sun, Catalina Tobon-Gomez, Sandhitsu R. Das, Marina Huguet, Paul A. Yushkevich, Alejandro F. Frangi
2008	—	`conf`	3D Cerebral Cortical Morphometry in Autism: Increased Folding in Children and Adolescents in Frontal, Parietal, and Temporal Lobes. MICCAI (1) Suyash P. Awate, Lawrence Win, Paul A. Yushkevich, Robert T. Schultz, James C. Gee
2008	—	`conf`	Branching medial models for cardiac shape representation. ISBI Hui Sun, Brian B. Avants, Alejandro F. Frangi, Sebastián Ordas, James C. Gee, Paul A. Yushkevich
2008	—	`conf`	Building an atlas of hippocampal subfields using postmortem MRI. ISBI Paul A. Yushkevich, Brian B. Avants, John Pluta, David Minkoff, Stephen Pickup, Weixia Liu, John A. Detre, Murray Grossman, James C. Gee
2008	—	`conf`	Cardiac Medial Modeling and Time-Course Heart Wall Thickness Analysis. MICCAI (2) Hui Sun, Brian B. Avants, Alejandro F. Frangi, Federico Sukno, James C. Gee, Paul A. Yushkevich
2008	—	`ch.`	Introduction. Medial Representations Stephen M. Pizer, Kaleem Siddiqi, Paul A. Yushkevich
2008	—	`conf`	Shape-Based Alignment of Hippocampal Subfields: Evaluation in Postmortem MRI. MICCAI (1) Paul A. Yushkevich, Brian B. Avants, John Pluta, David Minkoff, John A. Detre, Murray Grossman, James C. Gee
2008	—	`conf`	Spatial correspondence based asymmetry analysis in FMRI. ISBI Sandhitsu R. Das, Dawn Mechanic-Hamilton, Marc Korczykowski, Brian B. Avants, John A. Detre, James C. Gee, Paul A. Yushkevich
2008	J	`jnl`	Structure-specific statistical mapping of white matter tracts. NeuroImage Paul A. Yushkevich, Hui Zhang, Tony J. Simon, James C. Gee
2008	—	`conf`	Surface-based modeling of white matter fasciculi with orientation encoding. ISBI Hui Zhang, Paul A. Yushkevich, Tony J. Simon, James C. Gee
2008	—	`ch.`	Synthesis, Deformation, and Statistics of 3D Objects via M-Reps. Medial Representations Stephen M. Pizer, Qiong Han, Sarang C. Joshi, P. Thomas Fletcher, Paul A. Yushkevich, Andrew Thall
2007	—	`conf`	Evaluation of Shape-Based Normalization in the Corpus Callosum for White Matter Connectivity Analysis. MICCAI (2) Hui Sun, Paul A. Yushkevich, Hui Zhang, Philip A. Cook, Jeffrey T. Duda, Tony J. Simon, James C. Gee
2007	J	`jnl`	High-Dimensional Spatial Normalization of Diffusion Tensor Images Improves the Detection of White Matter Differences: An Example Study Using Amyotrophic Lateral Sclerosis. IEEE Trans. Medical Imaging Hui Zhang, Brian B. Avants, Paul A. Yushkevich, John H. Woo, Sumei Wang, L. F. McCluskey, L. B. Elman, Elias R. Melhem, James C. Gee
2007	J	`jnl`	Hippocampus-specific fMRI group activation analysis using the continuous medial representation. NeuroImage Paul A. Yushkevich, John A. Detre, Dawn Mechanic-Hamilton, María A. Fernández-Seara, Kathy Z. Tang, Angela Hoang, Marc Korczykowski, Hui Zhang, James C. Gee
2007	J	`jnl`	Neuroinformatics for Genome-Wide 3-D Gene Expression Mapping in the Mouse Brain. IEEE ACM Trans. Comput. Biol. Bioinform. Lydia Ng, Sayan D. Pathak, Chihchau Kuan, Christopher Lau, Hong-wei Dong, Andrew Sodt, Chinh Dang, Brian B. Avants, Paul A. Yushkevich, James C. Gee, David R. Haynor, Ed S. Lein, Allan Jones, Michael Hawrylycz
2007	—	`conf`	Non-Uniform Smoothing in Hippocampus-Specific Group Fmri Analysis. ISBI Paul A. Yushkevich, John A. Detre, James C. Gee
2007	J	`jnl`	Shape-Based Normalization of the Corpus Callosum for DTI Connectivity Analysis. IEEE Trans. Medical Imaging Hui Sun, Paul A. Yushkevich, Hui Zhang, Philip A. Cook, Jeffrey T. Duda, Tony J. Simon, James C. Gee
2007	A*	`conf`	Structure-Specific Statistical Mapping of White Matter Tracts using the Continuous Medial Representation. ICCV Paul A. Yushkevich, Hui Zhang, Tony J. Simon, James C. Gee
2007	—	`conf`	Unbiased White Matter Atlas Construction Using Diffusion Tensor Images. MICCAI (2) Hui Zhang, Paul A. Yushkevich, Daniel Rueckert, James C. Gee
2006	—	`conf`	3D Mouse Brain Reconstruction from Histology Using a Coarse-to-Fine Approach. WBIR Paul A. Yushkevich, Brian B. Avants, Lydia Ng, Michael Hawrylycz, Pablo D. Burstein, Hui Zhang, James C. Gee
2006	—	`ch.`	Anatomy-Based Visualizations of Diffusion Tensor Images of Brain White Matter. Visualization and Processing of Tensor Fields James C. Gee, Hui Zhang, Abraham Dubb, Brian B. Avants, Paul A. Yushkevich, Jeffrey T. Duda
2006	J	`jnl`	Continuous Medial Representation for Anatomical Structures. IEEE Trans. Medical Imaging Paul A. Yushkevich, Hui Zhang, James C. Gee
2006	J	`jnl`	Deformable registration of diffusion tensor MR images with explicit orientation optimization. Medical Image Anal. Hui Zhang, Paul A. Yushkevich, Daniel C. Alexander, James C. Gee
2006	—	`conf`	Efficient Generation of Shape-Based Reference Frames for the Corpus Callosum for DTI-based Connectivity Analysis. CVPR Workshops Hui Sun, Paul A. Yushkevich, Hui Zhang, James C. Gee, Tony J. Simon
2006	—	`conf`	Hippocampus-Specific fMRI Group Activation Analysis with Continuous M-Reps. MICCAI (2) Paul A. Yushkevich, John A. Detre, Kathy Z. Tang, Angela Hoang, Dawn Mechanic-Hamilton, María A. Fernández-Seara, Marc Korczykowski, Hui Zhang, James C. Gee
2006	J	`jnl`	User-guided 3D active contour segmentation of anatomical structures: Significantly improved efficiency and reliability. NeuroImage Paul A. Yushkevich, Joseph Piven, Heather Cody Hazlett, Rachel Gimpel Smith, Sean Ho, James C. Gee, Guido Gerig
2005	A	`conf`	An Automated Approach to Connectivity-Based Partitioning of Brain Structures. MICCAI Philip A. Cook, Hui Zhang, Brian B. Avants, Paul A. Yushkevich, Daniel C. Alexander, James C. Gee, Olga Ciccarelli, Alan J. Thompson
2005	A	`conf`	Deformable Registration of Diffusion Tensor MR Images with Explicit Orientation Optimization. MICCAI Hui Zhang, Paul A. Yushkevich, James C. Gee
2005	—	`conf`	Parametric Medial Shape Representation in 3-D via the Poisson Partial Differential Equation with Non-linear Boundary Conditions. IPMI Paul A. Yushkevich, Hui Zhang, James C. Gee
2005	—	`conf`	Statistical Modeling of Shape and Appearance Using the Continuous Medial Representation. MICCAI (2) Paul A. Yushkevich, Hui Zhang, James C. Gee
2004	—	`conf`	Regional Structural Characterization of the Brain of Schizophrenia Patients. MICCAI (2) Abraham Dubb, Paul A. Yushkevich, Zhiyong Xie, Ruben C. Gur, Raquel E. Gur, James C. Gee
2004	—	`conf`	Registration of Diffusion Tensor Images. CVPR (1) Hui Zhang, Paul A. Yushkevich, James C. Gee
2004	—	`conf`	Towards Diffusion Profile Image Registration. ISBI Hui Zhang, Paul A. Yushkevich, James C. Gee
2003	J	`jnl`	Continuous medial representations for geometric object modeling in 2D and 3D. Image Vis. Comput. Paul A. Yushkevich, P. Thomas Fletcher, Sarang C. Joshi, Andrew Thall, Stephen M. Pizer
2003	J	`jnl`	Deformable M-Reps for 3D Medical Image Segmentation. Int. J. Comput. Vis. Stephen M. Pizer, P. Thomas Fletcher, Sarang C. Joshi, Andrew Thall, James Z. Chen, Yonatan Fridman, Daniel S. Fritsch, A. Graham Gash, John M. Glotzer, Michael R. Jiroutek, Conglin Lu, Keith E. Muller, Gregg Tracton, Paul A. Yushkevich, Edward L. Chaney
2003	—	`conf`	Feature Selection for Shape-Based Classification of Biological Objects. IPMI Paul A. Yushkevich, Sarang C. Joshi, Stephen M. Pizer, John G. Csernansky, Lei E. Wang
2002	J	`jnl`	Multi-scale Deformable Model Segmentation and Statistical Shape Analysis Using Medial Descriptions. IEEE Trans. Medical Imaging Sarang C. Joshi, Stephen M. Pizer, P. Thomas Fletcher, Paul A. Yushkevich, Andrew Thall, J. S. Marron
2001	—	`conf`	Intuitive, Localized Analysis of Shape Variability. IPMI Paul A. Yushkevich, Stephen M. Pizer, Sarang C. Joshi, J. S. Marron
1999	J	`jnl`	Segmentation, Registration and Measurement of Shape Variation via Image Object Shape. IEEE Trans. Medical Imaging Stephen M. Pizer, Daniel S. Fritsch, Paul A. Yushkevich, Valen E. Johnson, Edward L. Chaney