Joseph O. Deasy

51 papers B 1C 3Journal 36Unranked 11

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Large language model trained on clinical oncology data predicts cancer progression. npj Digit. Medicine Menglei Zhu, Hui Lin, Jue Jiang, Abbas J. Jinia, Justin Jee, Karl Pichotta, Michele Waters, Doori Rose, Nikolaus Schultz, Sulov Chalise, Lohit Valleru, Olivier Morin, Jean Moran, Joseph O. Deasy, Shirin Pilai, Chelsea Nichols, Gregory Riely, Lior Z. Braunstein, Anyi Li
2025	J	`jnl`	ORCO: Ollivier-Ricci Curvature-Omics - an unsupervised method for analyzing robustness in biological systems. Bioinform. Anish K. Simhal, Corey Weistuch, Kevin A. Murgas, Daniel Grange, Jiening Zhu, Jung Hun Oh, Rena Elkin, Joseph O. Deasy
2024	J	`jnl`	Multi-omic integrated curvature study on pan-cancer genomic data. Math. Control. Signals Syst. Jiening Zhu, Anh Phong Tran, Joseph O. Deasy, Allen R. Tannenbaum
2024	J	`jnl`	Tumor aware recurrent inter-patient deformable image registration of computed tomography scans with lung cancer. CoRR Jue Jiang, Chloe Min Seo Choi, Maria Thor, Joseph O. Deasy, Harini Veeraraghavan
2024	J	`jnl`	Wasserstein HOG: Local Directionality Extraction via Optimal Transport. IEEE Trans. Medical Imaging Jiening Zhu, Harini Veeraraghavan, Jue Jiang, Jung Hun Oh, Larry Norton, Joseph O. Deasy, Allen R. Tannenbaum
2023	J	`jnl`	Geometric graph neural networks on multi-omics data to predict cancer survival outcomes. Comput. Biol. Medicine Jiening Zhu, Jung Hun Oh, Anish K. Simhal, Rena Elkin, Larry Norton, Joseph O. Deasy, Allen R. Tannenbaum
2023	J	`jnl`	Optimal Transport for Kernel Gaussian Mixture Models. CoRR Jung Hun Oh, Rena Elkin, Anish Kumar Simhal, Jiening Zhu, Joseph O. Deasy, Allen R. Tannenbaum
2023	J	`jnl`	ROE (Radiotherapy Outcomes Estimator): An open-source tool for optimizing radiotherapy prescriptions. Comput. Methods Programs Biomed. Aditi Iyer, Aditya P. Apte, Ethan Bendau, Maria Thor, Ishita Chen, Jacob Shin, Abraham J. Wu, Daniel Gomez, Andreas Rimner, Ellen Yorke, Joseph O. Deasy, Andrew Jackson
2022	J	`jnl`	Automated and Clinically Optimal Treatment Planning for Cancer Radiotherapy. INFORMS J. Appl. Anal. Masoud Zarepisheh, Linda Hong, Ying Zhou, Qijie Huang, Jie Yang, Gourav Jhanwar, Hai D. Pham, Pinar Dursun, Pengpeng Zhang, Margie Hunt, Gig S. Mageras, Jonathan T. Yang, Yoshiyasu Yamada, Joseph O. Deasy
2022	J	`jnl`	The maximum entropy principle for compositional data. BMC Bioinform. Corey Weistuch, Jiening Zhu, Joseph O. Deasy, Allen R. Tannenbaum
2022	J	`jnl`	Unpaired Cross-Modality Educed Distillation (CMEDL) for Medical Image Segmentation. IEEE Trans. Medical Imaging Jue Jiang, Andreas Rimner, Joseph O. Deasy, Harini Veeraraghavan
2022	J	`jnl`	aWCluster: A Novel Integrative Network-Based Clustering of Multiomics for Subtype Analysis of Cancer Data. IEEE ACM Trans. Comput. Biol. Bioinform. Maryam Pouryahya, Jung Hun Oh, Pedram Javanmard, James C. Mathews, Zehor Belkhatir, Joseph O. Deasy, Allen R. Tannenbaum
2021	J	`jnl`	Deep cross-modality (MR-CT) educed distillation learning for cone beam CT lung tumor segmentation. CoRR Jue Jiang, Sadegh Riyahi Alam, Ishita Chen, Perry Zhang, Andreas Rimner, Joseph O. Deasy, Harini Veeraraghavan
2021	J	`jnl`	Nested-block self-attention for robust radiotherapy planning segmentation. CoRR Harini Veeraraghavan, Jue Jiang, Elguindi Sharif, Sean L. Berry, Ifeanyirochukwu Onochie, Aditya P. Apte, Laura Cervino, Joseph O. Deasy
2021	J	`jnl`	PathCNN: interpretable convolutional neural networks for survival prediction and pathway analysis applied to glioblastoma. Bioinform. Jung Hun Oh, Wookjin Choi, Euiseong Ko, Mingon Kang, Allen R. Tannenbaum, Joseph O. Deasy
2021	J	`jnl`	Reproducible and Interpretable Spiculation Quantification for Lung Cancer Screening. Comput. Methods Programs Biomed. Wookjin Choi, Saad Nadeem, Sadegh R. Alam, Joseph O. Deasy, Allen R. Tannenbaum, Wei Lu
2021	J	`jnl`	Stochastic Norton-Simon-Massagué Tumor Growth Modeling: Controlled and Mixed-Effect Uncontrolled Analysis. IEEE Trans. Control. Syst. Technol. Zehor Belkhatir, Michele Pavon, James C. Mathews, Maryam Pouryahya, Joseph O. Deasy, Larry Norton, Allen R. Tannenbaum
2021	J	`jnl`	Unpaired cross-modality educed distillation (CMEDL) applied to CT lung tumor segmentation. CoRR Jue Jiang, Andreas Rimner, Joseph O. Deasy, Harini Veeraraghavan
2020	J	`jnl`	A Vectorial Approach to Unbalanced Optimal Mass Transport. IEEE Access Jiening Zhu, Rena Elkin, Jung Hun Oh, Joseph O. Deasy, Allen R. Tannenbaum
2020	J	`jnl`	A novel kernel Wasserstein distance on Gaussian measures: An application of identifying dental artifacts in head and neck computed tomography. Comput. Biol. Medicine Jung Hun Oh, Maryam Pouryahya, Aditi Iyer, Aditya P. Apte, Joseph O. Deasy, Allen R. Tannenbaum
2020	J	`jnl`	Multiple resolution residual network for automatic thoracic organs-at-risk segmentation from CT. CoRR Hyemin Um, Jue Jiang, Maria Thor, Andreas Rimner, Leo Luo, Joseph O. Deasy, Harini Veeraraghavan
2020	J	`jnl`	PSIGAN: Joint Probabilistic Segmentation and Image Distribution Matching for Unpaired Cross-Modality Adaptation-Based MRI Segmentation. IEEE Trans. Medical Imaging Jue Jiang, Yu-Chi Hu, Neelam Tyagi, Andreas Rimner, Nancy Lee, Joseph O. Deasy, Sean Berry, Harini Veeraraghavan
2020	J	`jnl`	PSIGAN: Joint probabilistic segmentation and image distribution matching for unpaired cross-modality adaptation based MRI segmentation. CoRR Jue Jiang, Yu-Chi Hu, Neelam Tyagi, Andreas Rimner, Nancy Lee, Joseph O. Deasy, Sean Berry, Harini Veeraraghavan
2019	—	`conf`	Cardio-Pulmonary Substructure Segmentation of CT Images Using Convolutional Neural Networks. AIRT@MICCAI Rabia Haq, Alexandra Hotca, Aditya P. Apte, Andreas Rimner, Joseph O. Deasy, Maria Thor
2019	J	`jnl`	Comparison of Patch-Based Conditional Generative Adversarial Neural Net Models with Emphasis on Model Robustness for Use in Head and Neck Cases for MR-Only planning. CoRR Peter Klages, Ilyes Benslimane, Sadegh Riyahi, Jue Jiang, Margie Hunt, Joseph O. Deasy, Harini Veeraraghavan, Neelam Tyagi
2019	—	`conf`	Controlled and Uncontrolled Stochastic Norton-Simon-Massagué Tumor Growth Models. CDC Zehor Belkhatir, Michele Pavon, James C. Mathews, Maryam Pouryahya, Joseph O. Deasy, Larry Norton, Allen R. Tannenbaum
2019	J	`jnl`	Cross-modality (CT-MRI) prior augmented deep learning for robust lung tumor segmentation from small MR datasets. CoRR Jue Jiang, Yu-Chi Hu, Neelam Tyagi, Pengpeng Zhang, Andreas Rimner, Joseph O. Deasy, Harini Veeraraghavan
2019	—	`conf`	Integrating Cross-modality Hallucinated MRI with CT to Aid Mediastinal Lung Tumor Segmentation. MICCAI (6) Jue Jiang, Jason Hu, Neelam Tyagi, Andreas Rimner, Sean L. Berry, Joseph O. Deasy, Harini Veeraraghavan
2019	J	`jnl`	Integrating cross-modality hallucinated MRI with CT to aid mediastinal lung tumor segmentation. CoRR Jue Jiang, Jason Hu, Neelam Tyagi, Andreas Rimner, Sean L. Berry, Joseph O. Deasy, Harini Veeraraghavan
2019	J	`jnl`	Kernel Wasserstein Distance. CoRR Jung Hun Oh, Maryam Pouryahya, Aditi Iyer, Aditya P. Apte, Allen R. Tannenbaum, Joseph O. Deasy
2019	J	`jnl`	Multiple Resolution Residually Connected Feature Streams for Automatic Lung Tumor Segmentation From CT Images. IEEE Trans. Medical Imaging Jue Jiang, Yu-Chi Hu, Chia-Ju Liu, Darragh Halpenny, Matthew D. Hellmann, Joseph O. Deasy, Gig S. Mageras, Harini Veeraraghavan
2018	—	`conf`	Interpretable Spiculation Quantification for Lung Cancer Screening. ShapeMI@MICCAI Wookjin Choi, Saad Nadeem, Sadegh Riyahi, Joseph O. Deasy, Allen R. Tannenbaum, Wei Lu
2018	J	`jnl`	Interpretable Spiculation Quantification for Lung Cancer Screening. CoRR Wookjin Choi, Saad Nadeem, Sadegh Riyahi, Joseph O. Deasy, Allen R. Tannenbaum, Wei Lu
2018	—	`conf`	Quantification of Local Metabolic Tumor Volume Changes by Registering Blended PET-CT Images for Prediction of Pathologic Tumor Response. DATRA/PIPPI@MICCAI Sadegh Riyahi, Wookjin Choi, Chia-Ju Liu, Saad Nadeem, Shan Tan, Hualiang Zhong, Wengen Chen, Abraham J. Wu, James G. Mechalakos, Joseph O. Deasy, Wei Lu
2018	J	`jnl`	Quantification of Local Metabolic Tumor Volume Changes by Registering Blended PET-CT Images for Prediction of Pathologic Tumor Response. CoRR Sadegh Riyahi, Wookjin Choi, Chia-Ju Liu, Saad Nadeem, Shan Tan, Hualiang Zhong, Wengen Chen, Abraham J. Wu, James G. Mechalakos, Joseph O. Deasy, Wei Lu
2018	—	`conf`	Tumor-Aware, Adversarial Domain Adaptation from CT to MRI for Lung Cancer Segmentation. MICCAI (2) Jue Jiang, Yu-Chi Hu, Neelam Tyagi, Pengpeng Zhang, Andreas Rimner, Gig S. Mageras, Joseph O. Deasy, Harini Veeraraghavan
2017	—	`conf`	Preconditioned Random Forest Regression: Application to Genome-Wide Study for Radiotherapy Toxicity Prediction. BCB Sangkyu Lee, Sarah Kerns, Barry Rosenstein, Harry Ostrer, Joseph O. Deasy, Jung Hun Oh
2016	J	`jnl`	A literature mining-based approach for identification of cellular pathways associated with chemoresistance in cancer. Briefings Bioinform. Jung Hun Oh, Joseph O. Deasy
2016	—	`conf`	Automatic detection and tracking of longitudinal changes of multiple bone metastases from dual energy CT. ISBI Duc Fehr, Charles Ross Schmidtlein, Sinchun Hwang, Joseph O. Deasy, Harini Veeraraghavan
2016	—	`conf`	Transcriptional responses to ultraviolet and ionizing radiation: An approach based on graph curvature. BIBM Yongxin Chen, Jung Hun Oh, Romeil Sandhu, Sangkyu Lee, Joseph O. Deasy, Allen R. Tannenbaum
2015	J	`jnl`	Automatic classification of prostate cancer Gleason scores from multiparametric magnetic resonance images. Proc. Natl. Acad. Sci. USA Duc Fehr, Harini Veeraraghavan, Andreas Wibmer, Tatsuo Gondo, Kazuhiro Matsumoto, Herbert Alberto Vargas, Evis Sala, Hedvig Hricak, Joseph O. Deasy
2014	—	`conf`	Automatic Bone and Marrow Extraction from Dual Energy CT through SVM Margin-Based Multi-Material Decomposition Model Selection. MLMI Harini Veeraraghavan, Duc Fehr, Charles Ross Schmidtlein, Sinchun Hwang, Joseph O. Deasy
2014	J	`jnl`	Inference of radio-responsive gene regulatory networks using the graphical lasso algorithm. BMC Bioinform. Jung Hun Oh, Joseph O. Deasy
2014	J	`jnl`	Modeling the Relationship between Fluorodeoxyglucose Uptake and Tumor Radioresistance as a Function of the Tumor Microenvironment. Comput. Math. Methods Medicine Jeho Jeong, Joseph O. Deasy
2014	J	`jnl`	SITDEM: A simulation tool for disease/endpoint models of association studies based on single nucleotide polymorphism genotypes. Comput. Biol. Medicine Jung Hun Oh, Joseph O. Deasy
2010	J	`jnl`	Modeling radiation-induced lung injury risk with an ensemble of support vector machines. Neurocomputing Todd W. Schiller, Yixin Chen, Issam El-Naqa, Joseph O. Deasy
2010	C	`conf`	Predicting Local Failure in Lung Cancer Using Bayesian Networks. ICMLA Jung Hun Oh, Jeffrey Craft, Rawan Al-Lozi, Manushka Vaidya, Yifan Meng, Joseph O. Deasy, Jeffrey D. Bradley, Issam El-Naqa
2009	C	`conf`	Improving Clinical Relevance in Ensemble Support Vector Machine Models of Radiation Pneumonitis Risk. ICMLA Todd W. Schiller, Yixin Chen, Issam El-Naqa, Joseph O. Deasy
2008	—	`conf`	A fast inverse consistent deformable image registration method based on symmetric optical flow computation. ACSCC Deshan Yang, Hua Li, Daniel A. Low, Joseph O. Deasy, Issam El-Naqa
2008	C	`conf`	Decision Fusion of Machine Learning Models to Predict Radiotherapy-Induced Lung Pneumonitis. ICMLA Shiva K. Das, Shifeng Chen, Joseph O. Deasy, Sumin Zhou, Fang-Fang Yin, Lawrence B. Marks
2007	B	`conf`	Level set motion assisted non-rigid 3D image registration. Image Processing Deshan Yang, Joseph O. Deasy, Daniel A. Low, Issam El-Naqa