| 2025 | ICML | POROver: Improving Safety and Reducing Overrefusal in Large Language Models with Overgeneration and Preference Optimization. | Batuhan K. Karaman, Ishmam Zabir, Alon Benhaim, Vishrav Chaudhary, Mert R. Sabuncu, Xia Song |
| 2025 | MICCAI | Fine-Tuning Vision Language Models with Graph-Based Knowledge for Explainable Medical Image Analysis. | Chenjun Li, Laurin Lux, Alexander H. Berger, Martin J. Menten, Mert R. Sabuncu, Johannes C. Paetzold |
| 2025 | MICCAI | Generating Novel Brain Morphology by Deforming Learned Templates. | Alan Q. Wang, Fangrui Huang, Bailey Trang, Wei Peng, Mohammad H. Abbasi, Kilian M. Pohl, Mert R. Sabuncu, Ehsan Adeli |
| 2025 | WACV | LLM-Generated Rewrite and Context Modulation for Enhanced Vision Language Models in Digital Pathology. | Cagla Deniz Bahadir, Gozde Bozdagi Akar, Mert R. Sabuncu |
| 2024 | ECCV | Adapting to Shifting Correlations with Unlabeled Data Calibration. | Minh Nguyen, Alan Q. Wang, Heejong Kim, Mert R. Sabuncu |
| 2024 | MICCAI | Longitudinal Mammogram Risk Prediction. | Batuhan K. Karaman, Katerina Dodelzon, Gzde Bozdagi Akar, Mert R. Sabuncu |
| 2024 | WACV | Robust Learning via Conditional Prevalence Adjustment. | Minh Nguyen, Alan Q. Wang, Heejong Kim, Mert R. Sabuncu |
| 2023 | ICCV | UniverSeg: Universal Medical Image Segmentation. | Victor Ion Butoi, Jose Javier Gonzalez Ortiz, Tianyu Ma, Mert R. Sabuncu, John V. Guttag, Adrian V. Dalca |
| 2023 | ICLR | Semi-Parametric Inducing Point Networks and Neural Processes. | Richa Rastogi, Yair Schiff, Alon Hacohen, Zhaozhi Li, Ian Lee, Yuntian Deng, Mert R. Sabuncu, Volodymyr Kuleshov |
| 2023 | MICCAI | Characterizing the Features of Mitotic Figures Using a Conditional Diffusion Probabilistic Model. | Cagla Deniz Bahadir, Benjamin Liechty, David J. Pisapia, Mert R. Sabuncu |
| 2023 | MICCAI | Neural Pre-processing: A Learning Framework for End-to-End Brain MRI Pre-processing. | Xinzi He, Alan Q. Wang, Mert R. Sabuncu |
| 2023 | MICCAI | Empirical Analysis of a Segmentation Foundation Model in Prostate Imaging. | Heejong Kim, Victor Ion Butoi, Adrian V. Dalca, Mert R. Sabuncu |
| 2023 | MICCAI | Zero-Shot Learning of Individualized Task Contrast Prediction from Resting-State Functional Connectomes. | Minh Nguyen, Gia H. Ngo, Mert R. Sabuncu |
| 2022 | WACV | Hyper-Convolution Networks for Biomedical Image Segmentation. | Tianyu Ma, Adrian V. Dalca, Mert R. Sabuncu |
| 2021 | MICCAI | Text2Brain: Synthesis of Brain Activation Maps from Free-Form Text Query. | Gia H. Ngo, Minh Nguyen, Nancy F. Chen, Mert R. Sabuncu |
| 2021 | MICCAI | HyperRecon: Regularization-Agnostic CS-MRI Reconstruction with Hypernetworks. | Alan Q. Wang, Adrian V. Dalca, Mert R. Sabuncu |
| 2021 | MICCAI | Joint Optimization of Hadamard Sensing and Reconstruction in Compressed Sensing Fluorescence Microscopy. | Alan Q. Wang, Aaron K. LaViolette, Leo Moon, Chris Xu, Mert R. Sabuncu |
| 2021 | MICCAI | Temporal Feature Fusion with Sampling Pattern Optimization for Multi-echo Gradient Echo Acquisition and Image Reconstruction. | Jinwei Zhang, Hang Zhang, Chao Li, Pascal Spincemaille, Mert R. Sabuncu, Thanh D. Nguyen, Yi Wang |
| 2021 | WACV | Ensembling Low Precision Models for Binary Biomedical Image Segmentation. | Tianyu Ma, Hang Zhang, Hanley Ong, Amar Vora, Thanh D. Nguyen, Ajay Gupta, Yi Wang, Mert R. Sabuncu |
| 2021 | WACV | Real-Time Uncertainty Estimation in Computer Vision via Uncertainty-Aware Distribution Distillation. | Yichen Shen, Zhilu Zhang, Mert R. Sabuncu, Lin Sun |
| 2020 | CVPR | Synthetic Learning: Learn From Distributed Asynchronized Discriminator GAN Without Sharing Medical Image Data. | Qi Chang, Hui Qu, Yikai Zhang, Mert R. Sabuncu, Chao Chen, Tong Zhang, Dimitris N. Metaxas |
| 2020 | MICCAI | A Shared Neural Encoding Model for the Prediction of Subject-Specific fMRI Response. | Meenakshi Khosla, Gia H. Ngo, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu |
| 2020 | MICCAI | From Connectomic to Task-Evoked Fingerprints: Individualized Prediction of Task Contrasts from Resting-State Functional Connectivity. | Gia H. Ngo, Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu |
| 2020 | MICCAI | Neural Network-Based Reconstruction in Compressed Sensing MRI Without Fully-Sampled Training Data. | Alan Q. Wang, Adrian V. Dalca, Mert R. Sabuncu |
| 2020 | MICCAI | Learning Conditional Deformable Shape Templates for Brain Anatomy. | Evan M. Yu, Adrian V. Dalca, Mert R. Sabuncu |
| 2020 | MICCAI | Extending LOUPE for K-Space Under-Sampling Pattern Optimization in Multi-coil MRI. | Jinwei Zhang, Hang Zhang, Alan Wang, Qihao Zhang, Mert R. Sabuncu, Pascal Spincemaille, Thanh D. Nguyen, Yi Wang |
| 2019 | MICCAI | Unsupervised Deep Learning for Bayesian Brain MRI Segmentation. | Adrian V. Dalca, Evan M. Yu, Polina Golland, Bruce Fischl, Mert R. Sabuncu, Juan Eugenio Iglesias |
| 2019 | MICCAI | Detecting Abnormalities in Resting-State Dynamics: An Unsupervised Learning Approach. | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu |
| 2019 | MICCAI | RSANet: Recurrent Slice-Wise Attention Network for Multiple Sclerosis Lesion Segmentation. | Hang Zhang, Jinwei Zhang, Qihao Zhang, Jeremy Kim, Shun Zhang, Susan A. Gauthier, Pascal Spincemaille, Thanh D. Nguyen, Mert R. Sabuncu, Yi Wang |
| 2019 | MICCAI | Detecting Cannabis-Associated Cognitive Impairment Using Resting-State fNIRS. | Yingying Zhu, Jodi M. Gilman, Anne Eden Evins, Mert R. Sabuncu |
| 2018 | CVPR | An Unsupervised Learning Model for Deformable Medical Image Registration. | Guha Balakrishnan, Amy Zhao, Mert R. Sabuncu, John V. Guttag, Adrian V. Dalca |
| 2018 | CVPR | Anatomical Priors in Convolutional Networks for Unsupervised Biomedical Segmentation. | Adrian V. Dalca, John V. Guttag, Mert R. Sabuncu |
| 2018 | MICCAI | Unsupervised Learning for Fast Probabilistic Diffeomorphic Registration. | Adrian V. Dalca, Guha Balakrishnan, John V. Guttag, Mert R. Sabuncu |
| 2018 | MICCAI | 3D Convolutional Neural Networks for Classification of Functional Connectomes. | Meenakshi Khosla, Keith Jamison, Amy Kuceyeski, Mert R. Sabuncu |
| 2018 | MICCAI | A Bayesian Disease Progression Model for Clinical Trajectories. | Yingying Zhu, Mert R. Sabuncu |
| 2015 | MICCAI | Mid-Space-Independent Symmetric Data Term for Pairwise Deformable Image Registration. | Iman Aganj, Juan Eugenio Iglesias, Martin Reuter, Mert R. Sabuncu, Bruce Fischl |
| 2015 | MICCAI | Predictive Modeling of Anatomy with Genetic and Clinical Data. | Adrian V. Dalca, Ramesh Sridharan, Mert R. Sabuncu, Polina Golland |
| 2015 | MICCAI | A Sparse Bayesian Learning Algorithm for Longitudinal Image Data. | Mert R. Sabuncu |
| 2014 | MICCAI | Segmentation of Cerebrovascular Pathologies in Stroke Patients with Spatial and Shape Priors. | Adrian Vasile Dalca, Ramesh Sridharan, Lisa Cloonan, Kaitlin M. Fitzpatrick, Allison Kanakis, Karen L. Furie, Jonathan Rosand, Ona Wu, Mert R. Sabuncu, Natalia S. Rost, Polina Golland |
| 2014 | MICCAI | A Cautionary Analysis of STAPLE Using Direct Inference of Segmentation Truth. | Koenraad Van Leemput, Mert R. Sabuncu |
| 2014 | MICCAI | A Universal and Efficient Method to Compute Maps from Image-Based Prediction Models. | Mert R. Sabuncu |
| 2013 | MICCAI | An Improved Optimization Method for the Relevance Voxel Machine. | Melanie Ganz, Mert R. Sabuncu, Koen Van Leemput |
| 2013 | MICCAI | A Probabilistic, Non-parametric Framework for Inter-modality Label Fusion. | Juan Eugenio Iglesias, Mert R. Sabuncu, Koen Van Leemput |
| 2013 | MICCAI | On Feature Relevance in Image-Based Prediction Models: An Empirical Study. | Ender Konukoglu, Melanie Ganz, Koen Van Leemput, Mert R. Sabuncu |
| 2013 | MICCAI | A Bayesian Algorithm for Image-Based Time-to-Event Prediction. | Mert R. Sabuncu |
| 2012 | MICCAI | A Generative Model for Probabilistic Label Fusion of Multimodal Data. | Juan Eugenio Iglesias, Mert R. Sabuncu, Koen Van Leemput |
| 2012 | MICCAI | Incorporating Parameter Uncertainty in Bayesian Segmentation Models: Application to Hippocampal Subfield Volumetry. | Juan Eugenio Iglesias, Mert R. Sabuncu, Koen Van Leemput |
| 2011 | ICASSP | Modeling anatomical heterogeneity in populations. | Polina Golland, Mert R. Sabuncu |
| 2011 | MICCAI | The Relevance Voxel Machine (RVoxM): A Bayesian Method for Image-Based Prediction. | Mert R. Sabuncu, Koen Van Leemput |
| 2010 | MICCAI | Robust Atlas-Based Segmentation of Highly Variable Anatomy: Left Atrium Segmentation. | Michal Depa, Mert R. Sabuncu, Godtfred Holmvang, Reza Nezafat, Ehud J. Schmidt, Polina Golland |
| 2009 | MICCAI | Supervised Nonparametric Image Parcellation. | Mert R. Sabuncu, B. T. Thomas Yeo, Koen Van Leemput, Bruce Fischl, Polina Golland |
| 2009 | MICCAI | Asymmetric Image-Template Registration. | Mert R. Sabuncu, B. T. Thomas Yeo, Koen Van Leemput, Tom Vercauteren, Polina Golland |
| 2009 | MICCAI | Task-Optimal Registration Cost Functions. | B. T. Thomas Yeo, Mert R. Sabuncu, Polina Golland, Bruce Fischl |
| 2008 | MICCAI | Analysis of Surfaces Using Constrained Regression Models. | Sune Darkner, Mert R. Sabuncu, Polina Golland, Rasmus R. Paulsen, Rasmus Larsen |
| 2008 | MICCAI | Discovering Modes of an Image Population through Mixture Modeling. | Mert R. Sabuncu, Serdar K. Balci, Polina Golland |
| 2008 | MICCAI | Spherical Demons: Fast Surface Registration. | B. T. Thomas Yeo, Mert R. Sabuncu, Tom Vercauteren, Nicholas Ayache, Bruce Fischl, Polina Golland |
| 2007 | ICCV | What Data to Co-register for Computing Atlases. | B. T. Thomas Yeo, Mert R. Sabuncu, Hartmut Mohlberg, Katrin Amunts, Karl Zilles, Polina Golland, Bruce Fischl |
| 2007 | ICCV | A Robust Algorithm for Fiber-Bundle Atlas Construction. | Ulas Ziyan, Mert R. Sabuncu, W. Eric L. Grimson, Carl-Fredrik Westin |
| 2007 | MICCAI | Effects of Registration Regularization and Atlas Sharpness on Segmentation Accuracy. | B. T. Thomas Yeo, Mert R. Sabuncu, Rahul Desikan, Bruce Fischl, Polina Golland |
| 2007 | MICCAI | Nonlinear Registration of Diffusion MR Images Based on Fiber Bundles. | Ulas Ziyan, Mert R. Sabuncu, Lauren O'Donnell, Carl-Fredrik Westin |
| 2005 | ICASSP | Gradient Based Optimization of an EMST Image Registration Function. | Mert R. Sabuncu, Peter J. Ramadge |
| 2004 | ICIP | Fast alignment of digital images using a lower bound on an entropy metric. | Mert R. Sabuncu, Peter J. Ramadge |