John A. Onofrey

Publication Activity (10 Years)

Years Active: 2013-2024
Publications (10 Years): 35

Top Topics

Motion Correction

Magnetic Resonance

Prostate Cancer

Top Venues

IEEE Trans. Medical Imaging

Medical Image Anal.

Publications

Daniel H. Pak, Minliang Liu, Theodore Kim, Liang Liang, Andrés Caballero, John A. Onofrey, Shawn S. Ahn, Yilin Xu, Raymond McKay, Wei Sun, Rudolph Gleason, James S. Duncan
Patient-Specific Heart Geometry Modeling for Solid Biomechanics Using Deep Learning. IEEE Trans. Medical Imaging 43 (1) (2024)
Zhuotong Cai, Jingmin Xin, Siyuan Dong, John A. Onofrey, Nanning Zheng, James S. Duncan
Symmetric Consistency with Cross-Domain Mixup for Cross-Modality Cardiac Segmentation. ICASSP (2024)
Tal Ze'evi, Michael S. Leapman, Preston C. Sprenkle, Rajesh Venkataraman, Lawrence H. Staib, John A. Onofrey
Reliable Prostate Cancer Risk Mapping From MRI Using Targeted and Systematic Core Needle Biopsy Histopathology. IEEE Trans. Biomed. Eng. 71 (3) (2024)
Zhuotong Cai, Jingmin Xin, Siyuan Dong, Chenyu You, Peiwen Shi, Tianyi Zeng, Jiazhen Zhang, John A. Onofrey, Nanning Zheng, James S. Duncan
Unsupervised Domain Adaptation by Cross-Prototype Contrastive Learning for Medical Image Segmentation. BIBM (2023)
Tianyi Zeng, Jiazhen Zhang, Eléonore V. Lieffrig, Zhuotong Cai, Fuyao Chen, Chenyu You, Mika Naganawa, Yihuan Lu, John A. Onofrey
Fast Reconstruction for Deep Learning PET Head Motion Correction. MICCAI (10) (2023)
Eléonore V. Lieffrig, Tianyi Zeng, Jiazhen Zhang, Kathryn Fontaine, Xi Fang, Enette Mae Revilla, Yihuan Lu, John A. Onofrey
Multi-Task Deep Learning and Uncertainty Estimation for Pet Head Motion Correction. ISBI (2023)
Xiongchao Chen, Bo Zhou, Huidong Xie, Xueqi Guo, Jiazhen Zhang, James S. Duncan, Edward J. Miller, Albert J. Sinusas, John A. Onofrey, Chi Liu
DuSFE: Dual-Channel Squeeze-Fusion-Excitation co-attention for cross-modality registration of cardiac SPECT and CT. Medical Image Anal. 88 (2023)
Jiayang Zhong, Lawrence H. Staib, Rajesh Venkataraman, John A. Onofrey
Integrating Prostate Specific Antigen Density Biomarker Into Deep Learning Prostate MRI Lesion Segmentation Models. ISBI (2023)
Zhuotong Cai, Tianyi Zeng, Eléonore V. Lieffrig, Jiazhen Zhang, Fuyao Chen, Takuya Toyonaga, Chenyu You, Jingmin Xin, Nanning Zheng, Yihuan Lu, James S. Duncan, John A. Onofrey
Cross-Attention for Improved Motion Correction in Brain PET. MLCN@MICCAI (2023)
Shawn S. Ahn, Kevinminh Ta, Stephanie Thorn, John A. Onofrey, Inga H. Melvinsdottir, Supum Lee, Jonathan Langdon, Albert J. Sinusas, James S. Duncan
Co-attention spatial transformer network for unsupervised motion tracking and cardiac strain analysis in 3D echocardiography. Medical Image Anal. 84 (2023)
Siyuan Dong, Gilbert Hangel, Eric Z. Chen, Shanhui Sun, Wolfgang Bogner, Georg Widhalm, Chenyu You, John A. Onofrey, Robin A. de Graaf, James S. Duncan
Flow-Based Visual Quality Enhancer for Super-Resolution Magnetic Resonance Spectroscopic Imaging. DGM4MICCAI@MICCAI (2022)
Chenyu You, Jinlin Xiang, Kun Su, Xiaoran Zhang, Siyuan Dong, John A. Onofrey, Lawrence H. Staib, James S. Duncan
Incremental Learning Meets Transfer Learning: Application to Multi-site Prostate MRI Segmentation. DeCaF/FAIR@MICCAI (2022)
Chenyu You, Jinlin Xiang, Kun Su, Xiaoran Zhang, Siyuan Dong, John A. Onofrey, Lawrence H. Staib, James S. Duncan
Incremental Learning Meets Transfer Learning: Application to Multi-site Prostate MRI Segmentation. CoRR (2022)
Tianyi Zeng, Jiazhen Zhang, Enette Mae Revilla, Eléonore V. Lieffrig, Xi Fang, Yihuan Lu, John A. Onofrey
Supervised Deep Learning for Head Motion Correction in PET. MICCAI (4) (2022)
Xiongchao Chen, Bo Zhou, Huidong Xie, Xueqi Guo, Jiazhen Zhang, Albert J. Sinusas, John A. Onofrey, Chi Liu
Dual-Branch Squeeze-Fusion-Excitation Module for Cross-Modality Registration of Cardiac SPECT and CT. MICCAI (6) (2022)
Xiongchao Chen, Bo Zhou, Huidong Xie, Xueqi Guo, Jiazhen Zhang, Albert J. Sinusas, John A. Onofrey, Chi Liu
Dual-Branch Squeeze-Fusion-Excitation Module for Cross-Modality Registration of Cardiac SPECT and CT. CoRR (2022)
Siyuan Dong, Gilbert Hangel, Wolfgang Bogner, Georg Widhalm, Karl Rössler, Siegfried Trattnig, Chenyu You, Robin A. de Graaf, John A. Onofrey, James S. Duncan
Multi-scale Super-Resolution Magnetic Resonance Spectroscopic Imaging with Adjustable Sharpness. MICCAI (6) (2022)
Chen Sun, Enette Mae Revilla, Jiazhen Zhang, Kathryn Fontaine, Takuya Toyonaga, Jean-Dominique Gallezot, Tim Mulnix, John A. Onofrey, Richard E. Carson, Yihuan Lu
An objective evaluation method for head motion estimation in PET - Motion corrected centroid-of-distribution. NeuroImage 264 (2022)
Siyuan Dong, Gilbert Hangel, Wolfgang Bogner, Georg Widhalm, Karl Rössler, Siegfried Trattnig, Chenyu You, Robin A. de Graaf, John A. Onofrey, James S. Duncan
Multi-scale Super-resolution Magnetic Resonance Spectroscopic Imaging with Adjustable Sharpness. CoRR (2022)
Jiazhen Zhang, Rajesh Venkataraman, Lawrence H. Staib, John A. Onofrey
Atlas-Based Semantic Segmentation of Prostate Zones. MICCAI (5) (2022)
Enette Mae Revilla, Jean-Dominique Gallezot, Mika Naganawa, Takuya Toyonaga, Kathryn Fontaine, Tim Mulnix, John A. Onofrey, Richard E. Carson, Yihuan Lu
Adaptive data-driven motion detection and optimized correction for brain PET. NeuroImage 252 (2022)
Siyuan Dong, Gilbert Hangel, Eric Z. Chen, Shanhui Sun, Wolfgang Bogner, Georg Widhalm, Chenyu You, John A. Onofrey, Robin A. de Graaf, James S. Duncan
Flow-based Visual Quality Enhancer for Super-resolution Magnetic Resonance Spectroscopic Imaging. CoRR (2022)
Ricardo A. Gonzales, Jérôme Lamy, Felicia Seemann, Einar Heiberg, John A. Onofrey, Dana C. Peters
TVnet: Automated Time-Resolved Tracking of the Tricuspid Valve Plane in MRI Long-Axis Cine Images with a Dual-Stage Deep Learning Pipeline. MICCAI (6) (2021)
Daniel H. Pak, Minliang Liu, Shawn S. Ahn, Andrés Caballero, John A. Onofrey, Liang Liang, Wei Sun, James S. Duncan
Weakly Supervised Deep Learning for Aortic Valve Finite Element Mesh Generation from 3D CT Images. IPMI (2021)
Luyao Shi, John A. Onofrey, Enette Mae Revilla, Takuya Toyonaga, David Menard, Joseph Ankrah, Richard E. Carson, Chi Liu, Yihuan Lu
A Novel Loss Function Incorporating Imaging Acquisition Physics for PET Attenuation Map Generation using Deep Learning. CoRR (2019)
John A. Onofrey, Lawrence H. Staib, Xenophon Papademetris
Segmenting the Brain Surface From CT Images With Artifacts Using Locally Oriented Appearance and Dictionary Learning. IEEE Trans. Medical Imaging 38 (2) (2019)
John A. Onofrey, Dana I. Casetti-Dinescu, Andreas D. Lauritzen, Saradwata Sarkar, Rajesh Venkataraman, Richard E. Fan, Geoffrey A. Sonn, Preston C. Sprenkle, Lawrence H. Staib, Xenophon Papademetris
Generalizable Multi-Site Training and Testing Of Deep Neural Networks Using Image Normalization. ISBI (2019)
Praneeth Sadda, Metehan Imamoglu, Michael Dombrowski, Xenophon Papademetris, Mert Ozan Bahtiyar, John A. Onofrey
Deep-learned placental vessel segmentation for intraoperative video enhancement in fetoscopic surgery. Int. J. Comput. Assist. Radiol. Surg. 14 (2) (2019)
Luyao Shi, John A. Onofrey, Enette Mae Revilla, Takuya Toyonaga, David Menard, Joseph Ankrah, Richard E. Carson, Chi Liu, Yihuan Lu
A Novel Loss Function Incorporating Imaging Acquisition Physics for PET Attenuation Map Generation Using Deep Learning. MICCAI (4) (2019)
Praneeth Sadda, John A. Onofrey, Xenophon Papademetris
Deep Learning Retinal Vessel Segmentation from a Single Annotated Example: An Application of Cyclic Generative Adversarial Neural Networks. CVII-STENT/LABELS@MICCAI (2018)
Chung Chan, John A. Onofrey, Yiqiang Jian, Mary Germino, Xenophon Papademetris, Richard E. Carson, Chi Liu
Non-Rigid Event-by-Event Continuous Respiratory Motion Compensated List-Mode Reconstruction for PET. IEEE Trans. Medical Imaging 37 (2) (2018)
Dustin Scheinost, John A. Onofrey, Soo Hyun Kwon, Sarah N. Cross, Gordon Sze, Laura R. Ment, Xenophon Papademetris
order edge features. ISBI (2018)
Praneeth Sadda, John A. Onofrey, Mert Ozan Bahtiyar, Xenophon Papademetris
Better Feature Matching for Placental Panorama Construction. DATRA/PIPPI@MICCAI (2018)
John A. Onofrey, Lawrence H. Staib, Saradwata Sarkar, Rajesh Venkataraman, Cayce B. Nawaf, Preston C. Sprenkle, Xenophon Papademetris
Learning Non-rigid Deformations for Robust, Constrained Point-based Registration in Image-Guided MR-TRUS Prostate Intervention. Medical Image Anal. 39 (2017)
John A. Onofrey, Ilkay Öksüz, Saradwata Sarkar, Rajesh Venkataraman, Lawrence H. Staib, Xenophon Papademetris
MRI-TRUS Image Synthesis with Application to Image-Guided Prostate Intervention. SASHIMI@MICCAI (2016)
Shaogang Ren, Shuai Huang, John A. Onofrey, Xenios Papademetris, Xiaoning Qian
A Scalable Algorithm for Structured Kernel Feature Selection. AISTATS (2015)
John A. Onofrey, Lawrence H. Staib, Xenophon Papademetris
Segmenting the Brain Surface from CT Images with Artifacts Using Dictionary Learning for Non-rigid MR-CT Registration. IPMI (2015)
John A. Onofrey, Xenophon Papademetris, Lawrence H. Staib
Low-Dimensional Non-Rigid Image Registration Using Statistical Deformation Models From Semi-Supervised Training Data. IEEE Trans. Medical Imaging 34 (7) (2015)
John A. Onofrey, Lawrence H. Staib, Saradwata Sarkar, Rajesh Venkataraman, Xenophon Papademetris
Learning nonrigid deformations for constrained point-based registration for image-guided MR-TRUS prostate intervention. ISBI (2015)
John A. Onofrey, Lawrence H. Staib, Xenophon Papademetris
Learning Nonrigid Deformations for Constrained Multi-modal Image Registration. MICCAI (3) (2013)
John A. Onofrey, Lawrence H. Staib, Xenophon Papademetris
Fast nonrigid image registration using statistical deformation models learned from richly-annotated data. ISBI (2013)
John A. Onofrey, Lawrence H. Staib, Xenophon Papademetris
Semi-supervised Learning of Nonrigid Deformations for Image Registration. MCV (2013)