Bispectral analysis of tracheal breath sounds for Obstructive Sleep Apnea. - Ehsan Shams; Davood Karimi; Zahra Moussavi (EMBC, 2012)

Statistical analysis of tracheal breath sounds during wakefulness for screening obstructive sleep apnea. - Cameron A. MacGregor; Davood Karimi; Ali Azarbarzin; Zahra Moussavi (EMBC, 2013)

Angular upsampling of projection measurements in 3D computed tomography using a sparsity prior. - Davood Karimi; Rabab K. Ward; Nancy L. Ford (ICIP, 2015)

Sinogram smoothing and interpolation via alternating projections onto the slope and curvature constraints. - Davood Karimi; Rabab K. Ward (Image Processing, 2016)

A novel structured dictionary for fast processing of 3D medical images, with application to computed tomography restoration and denoising. - Davood Karimi; Rabab K. Ward (Image Processing, 2016)

A sinogram denoising algorithm for low-dose computed tomography. - Davood Karimi; Pierre Deman; Rabab K. Ward; Nancy L. Ford (BMC Medical Imaging, 2016)

Patch-based models and algorithms for image processing: a review of the basic principles and methods, and their application in computed tomography. - Davood Karimi; Rabab K. Ward (Int. J. Comput. Assist. Radiol. Surg., 2016)

A denoising algorithm for projection measurements in cone-beam computed tomography. - Davood Karimi; Rabab K. Ward (Comput. Biol. Medicine, 2016)

On the computational implementation of forward and back-projection operations for cone-beam computed tomography. - Davood Karimi; Rabab K. Ward (Medical Biol. Eng. Comput., 2016)

Image reconstruction in computed tomography using variance-reduced stochastic gradient descent. - Davood Karimi; Rabab K. Ward (ISBI, 2017)

Synergistic Combination of Learned and Hand-Crafted Features for Prostate Lesion Classification in Multiparametric Magnetic Resonance Imaging. - Davood Karimi; Dan Ruan (MICCAI (3), 2017)

Accurate and Robust Segmentation of the Clinical Target Volume for Prostate Brachytherapy. - Davood Karimi; Qi Zeng 004; Prateek Mathur; Apeksha Avinash; Sara Mahdavi; Ingrid Spadinger; Purang Abolmaesumi; Septimiu E. Salcudean (MICCAI (4), 2018)

Prostate segmentation in MRI using a convolutional neural network architecture and training strategy based on statistical shape models. - Davood Karimi; Golnoosh Samei; Claudia Kesch; Guy Nir; Septimiu E. Salcudean (Int. J. Comput. Assist. Radiol. Surg., 2018)

Prostate segmentation in transrectal ultrasound using magnetic resonance imaging priors. - Qi Zeng 004; Golnoosh Samei; Davood Karimi; Claudia Kesch; Seyedeh Sara Mahdavi; Purang Abolmaesumi; Septimiu E. Salcudean (Int. J. Comput. Assist. Radiol. Surg., 2018)

Automatic grading of prostate cancer in digitized histopathology images: Learning from multiple experts. - Guy Nir; Soheil Hor; Davood Karimi; Ladan Fazli; Brian F. Skinnider; Peyman Tavassoli; Dmitry Turbin; Carlos F. Villamil; Gang Wang; R. Storey Wilson; Kenneth A. Iczkowski; M. Scott Lucia; et al. (Medical Image Anal., 2018)

Liver Segmentation in Magnetic Resonance Imaging via Mean Shape Fitting with Fully Convolutional Neural Networks. - Qi Zeng 004; Davood Karimi; Emily H. T. Pang; Shahed K. Mohammed; Caitlin Schneider; Mohammad Honarvar; Septimiu E. Salcudean (MICCAI (2), 2019)

A deep learning-based method for prostate segmentation in T2-weighted magnetic resonance imaging. - Davood Karimi; Golnoosh Samei; Yanan Shao; Tim Salcudean (CoRR, 2019)

Sparse and redundant signal representations for x-ray computed tomography. - Davood Karimi (CoRR, 2019)

Accurate and robust deep learning-based segmentation of the prostate clinical target volume in ultrasound images. - Davood Karimi; Qi Zeng 004; Prateek Mathur; Apeksha Avinash; Sara Mahdavi; Ingrid Spadinger; Purang Abolmaesumi; Septimiu E. Salcudean (Medical Image Anal., 2019)

Learning to Detect Brain Lesions from Noisy Annotations. - Davood Karimi; Jurriaan M. Peters; Abdelhakim Ouaalam; Sanjay P. Prabhu; Mustafa Sahin; Darcy A. Krueger; Alexander Kolevzon; Charis Eng; Simon K. Warfield; Ali Gholipour (ISBI, 2020)

Improving Calibration and Out-of-Distribution Detection in Medical Image Segmentation with Convolutional Neural Networks. - Davood Karimi; Ali Gholipour (CoRR, 2020)

Critical Assessment of Transfer Learning for Medical Image Segmentation with Fully Convolutional Neural Networks. - Davood Karimi; Simon K. Warfield; Ali Gholipour (CoRR, 2020)

Deep learning with noisy labels: Exploring techniques and remedies in medical image analysis. - Davood Karimi; Haoran Dou; Simon K. Warfield; Ali Gholipour (Medical Image Anal., 2020)

Deep Learning-Based Gleason Grading of Prostate Cancer From Histopathology Images - Role of Multiscale Decision Aggregation and Data Augmentation. - Davood Karimi; Guy Nir; Ladan Fazli; Peter C. Black; Larry Goldenberg; Septimiu E. Salcudean (IEEE J. Biomed. Health Informatics, 2020)

Reducing the Hausdorff Distance in Medical Image Segmentation With Convolutional Neural Networks. - Davood Karimi; Septimiu E. Salcudean (IEEE Trans. Medical Imaging, 2020)

Interpolation of CT Projections by Exploiting Their Self-Similarity and Smoothness. - Davood Karimi; Rabab Ward (ICIP, 2021)

Convolution-Free Medical Image Segmentation Using Transformers. - Davood Karimi; Serge Vasylechko; Ali Gholipour (MICCAI (1), 2021)

Accurate Parameter Estimation in Fetal Diffusion-Weighted MRI - Learning from Fetal and Newborn Data. - Davood Karimi; Lana Vasung; Fedel Machado-Rivas; Camilo Jaimes; Shadab Khan; Ali Gholipour (MICCAI (7), 2021)

Transfer learning in medical image segmentation: New insights from analysis of the dynamics of model parameters and learned representations. - Davood Karimi; Simon K. Warfield; Ali Gholipour (Artif. Intell. Medicine, 2021)

Automatic Segmentation of the Prostate on 3D Trans-rectal Ultrasound Images using Statistical Shape Models and Convolutional Neural Networks. - Golnoosh Samei; Davood Karimi; Claudia Kesch; Septimiu E. Salcudean (CoRR, 2021)

Calibrated Diffusion Tensor Estimation. - Davood Karimi; Simon K. Warfield; Ali Gholipour (CoRR, 2021)

A machine learning-based method for estimating the number and orientations of major fascicles in diffusion-weighted magnetic resonance imaging. - Davood Karimi; Lana Vasung; Camilo Jaimes; Fedel Machado-Rivas; Shadab Khan; Simon K. Warfield; Ali Gholipour (Medical Image Anal., 2021)

Deep learning-based parameter estimation in fetal diffusion-weighted MRI. - Davood Karimi; Camilo Jaimes; Fedel Machado-Rivas; Lana Vasung; Shadab Khan; Simon K. Warfield; Ali Gholipour (NeuroImage, 2021)

Learning to estimate the fiber orientation distribution function from diffusion-weighted MRI. - Davood Karimi; Lana Vasung; Camilo Jaimes; Fedel Machado-Rivas; Simon K. Warfield; Ali Gholipour (NeuroImage, 2021)

A Deep Attentive Convolutional Neural Network for Automatic Cortical Plate Segmentation in Fetal MRI. - Haoran Dou; Davood Karimi; Caitlin K. Rollins; Cynthia M. Ortinau; Lana Vasung; Clemente Velasco-Annis; Abdelhakim Ouaalam; Xin Yang 009; Dong Ni 001; Ali Gholipour (IEEE Trans. Medical Imaging, 2021)

Deep Learning Framework for Real-Time Fetal Brain Segmentation in MRI. - Razieh Faghihpirayesh; Davood Karimi; Deniz Erdogmus; Ali Gholipour (PIPPI@MICCAI, 2022)

Atlas-Powered Deep Learning (ADL) - Application to Diffusion Weighted MRI. - Davood Karimi; Ali Gholipour (MICCAI (1), 2022)

Medical Image Segmentation Using Transformer Networks. - Davood Karimi; Haoran Dou; Ali Gholipour (IEEE Access, 2022)

Diffusion tensor estimation with transformer neural networks. - Davood Karimi; Ali Gholipour (Artif. Intell. Medicine, 2022)

Fetal Brain Tissue Annotation and Segmentation Challenge Results. - Kelly Payette; Hongwei Li 004; Priscille de Dumast; Roxane Licandro; Hui Ji; Md Mahfuzur Rahman Siddiquee; Daguang Xu; Andriy Myronenko; Hao Liu; Yuchen Pei; Lisheng Wang; Ying Peng; et al. (CoRR, 2022)

Subject-specific quantitative susceptibility mapping using patch based deep image priors. - Arvind Balachandrasekaran; Davood Karimi; Camilo Jaimes; Ali Gholipour (CoRR, 2022)

Insights from the IronTract challenge: Optimal methods for mapping brain pathways from multi-shell diffusion MRI. - Chiara Maffei; Gabriel Girard; Kurt G. Schilling; Dogu Baran Aydogan; Nagesh Adluru; Andrey Zhylka; Ye Wu 001; Matteo Mancini; Andac Hamamci; Alessia Sarica; Achille Teillac; Steven H. Baete; et al. (NeuroImage, 2022)

A Computational Framework for Characterizing Normative Development of Structural Brain Connectivity in the Perinatal Stage. - Yihan Wu; Ali Gholipour; Lana Vasung; Davood Karimi (ISBI, 2023)

Robust Estimation of the Microstructure of the Early Developing Brain Using Deep Learning. - Hamza Kebiri; Ali Gholipour; Rizhong Lin; Lana Vasung; Davood Karimi; Meritxell Bach Cuadra (MICCAI (7), 2023)

Automatic brain pose estimation in fetal MRI. - Razieh Faghihpirayesh; Davood Karimi; Deniz Erdogmus; Ali Gholipour (Image Processing, 2023)

Direct segmentation of brain white matter tracts in diffusion MRI. - Hamza Kebiri; Ali Gholipour; Meritxell Bach Cuadra; Davood Karimi (CoRR, 2023)

TBSS++: A novel computational method for Tract-Based Spatial Statistics. - Davood Karimi; Hamza Kebiri; Ali Gholipour (CoRR, 2023)

Characterizing normal perinatal development of the human brain structural connectivity. - Yihan Wu; Lana Vasung; Camilo Calixto; Ali Gholipour; Davood Karimi (CoRR, 2023)

Fetal-BET: Brain Extraction Tool for Fetal MRI. - Razieh Faghihpirayesh; Davood Karimi; Deniz Erdogmus; Ali Gholipour (CoRR, 2023)

Learning to segment fetal brain tissue from noisy annotations. - Davood Karimi; Caitlin K. Rollins; Clemente Velasco-Annis; Abdelhakim Ouaalam; Ali Gholipour (Medical Image Anal., 2023)

Improving Calibration and Out-of-Distribution Detection in Deep Models for Medical Image Segmentation. - Davood Karimi; Ali Gholipour (IEEE Trans. Artif. Intell., 2023)

Fetal brain tissue annotation and segmentation challenge results. - Kelly Payette; Hongwei Bran Li; Priscille de Dumast; Roxane Licandro; Hui Ji; Md Mahfuzur Rahman Siddiquee; Daguang Xu; Andriy Myronenko; Hao Liu; Yuchen Pei; Lisheng Wang; Ying Peng; et al. (Medical Image Anal., 2023)

Cross-Age and Cross-Site Domain Shift Impacts on Deep Learning-Based White Matter Fiber Estimation in Newborn and Baby Brains. - Rizhong Lin; Ali Gholipour; Jean-Philippe Thiran; Davood Karimi; Hamza Kebiri; Meritxell Bach Cuadra (ISBI, 2024)

An Approach to Building Foundation Models for Brain Image Analysis. - Davood Karimi (MICCAI (12), 2024)

Ground-Truth Effects in Learning-Based Fiber Orientation Distribution Estimation in Neonatal Brains. - Rizhong Lin; Hamza Kebiri; Ali Gholipour; Yufei Chen 002; Jean-Philippe Thiran; Davood Karimi; Meritxell Bach Cuadra (CDMRI@MICCAI, 2024)

Advanced Framework for Fetal Diffusion MRI: Dynamic Distortion and Motion Correction. - Haykel Snoussi; Davood Karimi; Onur Afacan; Mustafa Utkur; Ali Gholipour (PIPPI@MICCAI, 2024)

Diffusion MRI with Machine Learning. - Davood Karimi (CoRR, 2024)

QUBIQ: Uncertainty Quantification for Biomedical Image Segmentation Challenge. - Hongwei Bran Li; Fernando Navarro; Ivan Ezhov; Amirhossein Bayat; Dhritiman Das; Florian Kofler; Suprosanna Shit; Diana Waldmannstetter; Johannes C. Paetzold; Xiaobin Hu; Benedikt Wiestler; Lucas Zimmer; et al. (CoRR, 2024)

HAITCH: A Framework for Distortion and Motion Correction in Fetal Multi-Shell Diffusion-Weighted MRI. - Haykel Snoussi; Davood Karimi; Onur Afacan; Mustafa Utkur; Ali Gholipour (CoRR, 2024)

Streamline tractography of the fetal brain in utero with machine learning. - Weide Liu; Camilo Calixto; Simon K. Warfield; Davood Karimi (CoRR, 2024)

Detailed delineation of the fetal brain in diffusion MRI via multi-task learning. - Davood Karimi; Camilo Calixto; Haykel Snoussi; Maria Camila Cortes-Albornoz; Clemente Velasco-Annis; Caitlin K. Rollins; Camilo Jaimes; Ali Gholipour; Simon K. Warfield (CoRR, 2024)

Deep learning microstructure estimation of developing brains from diffusion MRI: A newborn and fetal study. - Hamza Kebiri; Ali Gholipour; Rizhong Lin; Lana Vasung; Camilo Calixto; Zeljka Krsnik; Davood Karimi; Meritxell Bach Cuadra (Medical Image Anal., 2024)

Anatomically constrained tractography of the fetal brain. - Camilo Calixto; Camilo Jaimes; Matheus D. Soldatelli; Simon K. Warfield; Ali Gholipour; Davood Karimi (NeuroImage, 2024)

Incorporating spatial information in deep learning parameter estimation with application to the intravoxel incoherent motion model in diffusion-weighted MRI. - Misha P. T. Kaandorp; Frank Zijlstra; Davood Karimi; Ali Gholipour; Peter T. While (Medical Image Anal., 2025)

FetDTIAlign: A deep learning framework for affine and deformable registration of fetal brain dMRI. - Bo Li 088; Qi Zeng 004; Simon K. Warfield; Davood Karimi (NeuroImage, 2025)

Towards automatic US-MR fetal brain image registration with learning-based methods. - Qi Zeng 004; Weide Liu; Bo Li 088; Ryne Didier; P. Ellen Grant; Davood Karimi (NeuroImage, 2025)

Equivariant Spherical CNNs for Accurate Fiber Orientation Distribution Estimation in Neonatal Diffusion MRI with Reduced Acquisition Time. - Haykel Snoussi; Davood Karimi (CoRR, 2025)

Advances in Automated Fetal Brain MRI Segmentation and Biometry: Insights from the FeTA 2024 Challenge. - Vladyslav Zalevskyi; Thomas Sanchez; Misha P. T. Kaandorp; Margaux Roulet; Diego Fajardo Rojas; Liu Li; Jana Hutter; Hongwei Bran Li; Matthew J. Barkovich; Hui Ji; Luca Wilhelmi; Aline Dändliker; et al. (CoRR, 2025)