Implementation of an Environment for Monte Carlo Simulation of Fully 3-D Positron Tomography on a High-Performance Parallel Platform. - Habib Zaidi; Claire Labbé; Christian Morel (Parallel Comput., 1998)

An Object-Oriented Library for 3D PET Reconstruction Using Parallel Computing. - Claire Labbé; Kris Thielemans; D. Belluzzo; Valentino Bettinardi; Maria Carla Gilardi; D. S. Hague; Matthew W. Jacobson; S. Kaiser; Roni Levkovitz; T. Margalit; Gautam Mitra; Christian Morel; et al. (Bildverarbeitung für die Medizin, 1999)

Assessment of the impact of model-based scatter correction on [18F]-FDG 3D brain PET in healthy subjects using statistical parametric mapping. - Marie-Louise Montandon; Daniel O. Slosman; Habib Zaidi (NeuroImage, 2003)

Atlas-guided non-uniform attenuation correction in cerebral 3D PET imaging. - Marie-Louise Montandon; Habib Zaidi (NeuroImage, 2005)

Functional segmentation of dynamic nuclear images by cross-PsiB-energy operator. - Abdel-Ouahab Boudraa; Jean-Christophe Cexus; Habib Zaidi (Comput. Methods Programs Biomed., 2006)

Medical image segmentation: Quo Vadis. - Habib Zaidi (Comput. Methods Programs Biomed., 2006)

Comparative assessment of statistical brain MR image segmentation algorithms and their impact on partial volume correction in PET. - Habib Zaidi; Torsten Ruest; Frederic Schoenahl; Marie-Louise Montandon (NeuroImage, 2006)

Quantitative analysis of template-based attenuation compensation in 3D brain PET. - Marie-Louise Montandon; Habib Zaidi (Comput. Medical Imaging Graph., 2007)

The Mathematical Foundations of 3D Compton Scatter Emission Imaging. - Tuong T. Truong; Maï Khuong Nguyen; Habib Zaidi (Int. J. Biomed. Imaging, 2007)

Current status and new horizons in Monte Carlo simulation of X-ray CT scanners. - Habib Zaidi; Mohammad Reza Ay (Medical Biol. Eng. Comput., 2007)

Strategies for attenuation compensation in neurological PET studies. - Habib Zaidi; Marie-Louise Montandon; Steve Meikle (NeuroImage, 2007)

Review of Computational Anthropomorphic Anatomical and Physiological Models. - Habib Zaidi; Benjamin M. W. Tsui (Proc. IEEE, 2009)

Novel hybrid approach combining ANN and MRA for PET volume segmentation. - Mhd Saeed Sharif; Maysam F. Abbod; Abbes Amira; Habib Zaidi (APCCAS, 2010)

A novel V-line Radon transform and its imaging applications. - Marcela A. Morvidone; Tuong T. Truong; Maï Khuong Nguyen; Habib Zaidi (ICIP, 2010)

3D Oncological PET volume analysis using CNN and LVQNN. - Mhd Saeed Sharif; Abbes Amira; Habib Zaidi (ISCAS, 2010)

Intelligent approach for PET volume analysis. - Mhd Saeed Sharif; Abbes Amira; Habib Zaidi (ISCAS, 2010)

On the V-Line Radon Transform and Its Imaging Applications. - Marcela A. Morvidone; Maï Khuong Nguyen; Tuong T. Truong; Habib Zaidi (Int. J. Biomed. Imaging, 2010)

Artificial Neural Network-Based System for PET Volume Segmentation. - Mhd Saeed Sharif; Maysam F. Abbod; Abbes Amira; Habib Zaidi (Int. J. Biomed. Imaging, 2010)

A contextual based double watermarking of PET images by patient ID and ECG signal. - Mohammad Saleh Nambakhsh; Alireza Ahmadian; Habib Zaidi (Comput. Methods Programs Biomed., 2011)

Scattered Radiation Emission Imaging: Principles and Applications. - Maï Khuong Nguyen; Tuong T. Truong; Marcela A. Morvidone; Habib Zaidi (Int. J. Biomed. Imaging, 2011)

Artificial Neural Network-Statistical Approach for PET Volume Analysis and Classification. - Mhd Saeed Sharif; Maysam F. Abbod; Abbes Amira; Habib Zaidi (Adv. Fuzzy Syst., 2012)

Anatomically guided voxel-based partial volume effect correction in brain PET: Impact of MRI segmentation. - Daniel Gutierrez; Marie-Louise Montandon; Frédéric Assal; Mohamed Allaoua; Osman Ratib; Karl-Olof Lövblad; Habib Zaidi (Comput. Medical Imaging Graph., 2012)

Comparative Study With New Accuracy Metrics for Target Volume Contouring in PET Image Guided Radiation Therapy. - Tony Shepherd; Mika Teräs; Reinhard Beichel; Ronald Boellaard; Michel Bruynooghe; Volker Dicken; Mark J. Gooding; Peter J. Julyan; John Aldo Lee; Sébastien Lefèvre; Michael Mix; Valery Naranjo; et al. (IEEE Trans. Medical Imaging, 2012)

X-ray CT Metal Artifact Reduction Using Wavelet Domain $L_{0}$ Sparse Regularization. - Abolfazl Mehranian; Mohammad Reza Ay; Arman Rahmim; Habib Zaidi (IEEE Trans. Medical Imaging, 2013)

A 5D computational phantom for pharmacokinetic simulation studies in dynamic emission tomography. - Fotis A. Kotasidis; Charalampos Tsoumpas; Irene Polycarpou; Habib Zaidi (Comput. Medical Imaging Graph., 2014)

Joint Estimation of Activity and Attenuation in Whole-Body TOF PET/MRI Using Constrained Gaussian Mixture Models. - Abolfazl Mehranian; Habib Zaidi (IEEE Trans. Medical Imaging, 2015)

Magnetic resonance imaging-guided attenuation correction in whole-body PET/MRI using a sorted atlas approach. - Hossein Arabi; Habib Zaidi (Medical Image Anal., 2016)

Quantitative analysis of MRI-guided attenuation correction techniques in time-of-flight brain PET/MRI. - Abolfazl Mehranian; Hossein Arabi; Habib Zaidi (NeuroImage, 2016)

The Promise of Hybrid PET /MRI: Technical advances and clinical applications. - Habib Zaidi; Minerva Becker (IEEE Signal Process. Mag., 2016)

Quantitative PET image reconstruction employing nested expectation-maximization deconvolution for motion compensation. - Nicolas A. Karakatsanis; Charalampos Tsoumpas; Habib Zaidi (Comput. Medical Imaging Graph., 2017)

Comparison of atlas-based techniques for whole-body bone segmentation. - Hossein Arabi; Habib Zaidi (Medical Image Anal., 2017)

MR-guided joint reconstruction of activity and attenuation in brain PET-MR. - Abolfazl Mehranian; Habib Zaidi; Andrew J. Reader (NeuroImage, 2017)

A Novel Method for Measuring the MTF of CT Scanners: A Phantom Study. - Hamidreza Khodajou-Chokami; Seyed Abolfazl Hosseini; Mohammad Reza Ay; Ali Safarzadehamiri; Pardis Ghafarian; Habib Zaidi (MeMeA, 2019)

MCNP-FBSM: Development of MCNP/MCNPX Source Model for Simulation of Multi-Slice Fan-Beam X-Ray CT Scanners. - Hamidreza Khodajou-Chokami; Seyed Abolfazl Hosseini; Mohammad Reza Ay; Habib Zaidi (MeMeA, 2019)

Brain MR Imaging Segmentation Using Convolutional Auto Encoder Network for PET Attenuation Correction. - Imene Mecheter; Abbes Amira; Maysam Abbod; Habib Zaidi (IntelliSys (3), 2020)

Deep Learning based Segmentation for Multi MR Imaging Protocols using Transfer Learning for PET Attenuation Correction. - Imene Mecheter; Abbes Amira; Maysam Abbod; Habib Zaidi (SSCI, 2020)

Deep learning-guided estimation of attenuation correction factors from time-of-flight PET emission data. - Hossein Arabi; Habib Zaidi (Medical Image Anal., 2020)

A Deep Neural Network To Recover Missing Data In Small Animal Pet Imaging: Comparison Between Sinogram- And Image-Domain Implementations. - Mahsa Amirrashedi; Saeed Sarkar; Hossein Ghadiri; Pardis Ghafarian; Habib Zaidi; Mohammad Reza Ay (ISBI, 2021)

Helical CT Reconstruction From Sparse-View Data Through Exploiting the 3D Anatomical Structure Sparsity. - Yongbo Wang; Gaofeng Chen; Tao Xi; Zhaoying Bian; Dong Zeng; Habib Zaidi; Ji He; Jianhua Ma 001 (IEEE Access, 2021)

Personalized brachytherapy dose reconstruction using deep learning. - Azadeh Akhavanallaf; Reza Mohammadi; Isaac Shiri; Yazdan Salimi; Hossein Arabi; Habib Zaidi (Comput. Biol. Medicine, 2021)

Artificial intelligence-driven assessment of radiological images for COVID-19. - Yassine Bouchareb; Pegah Moradi Khaniabadi; Faiza Al Kindi; Humoud Al Dhuhli; Isaac Shiri; Habib Zaidi; Arman Rahmim (Comput. Biol. Medicine, 2021)

Non-small cell lung carcinoma histopathological subtype phenotyping using high-dimensional multinomial multiclass CT radiomics signature. - Zahra Khodabakhshi; Shayan Mostafaei; Hossein Arabi; Mehrdad Oveisi; Isaac Shiri; Habib Zaidi (Comput. Biol. Medicine, 2021)

Radiomics-based machine learning model to predict risk of death within 5-years in clear cell renal cell carcinoma patients. - Mostafa Nazari; Isaac Shiri; Habib Zaidi (Comput. Biol. Medicine, 2021)

Machine learning-based prognostic modeling using clinical data and quantitative radiomic features from chest CT images in COVID-19 patients. - Isaac Shiri; Majid Sorouri; Parham Geramifar; Mostafa Nazari; Mohammad Abdollahi; Yazdan Salimi; Bardia Khosravi; Dariush Askari; Leila Aghaghazvini; Ghasem Hajianfar; Amir Kasaeian; Hamid Abdollahi; et al. (Comput. Biol. Medicine, 2021)

Leveraging deep neural networks to improve numerical and perceptual image quality in low-dose preclinical PET imaging. - Mahsa Amirrashedi; Saeed Sarkar; Hojjat Mamizadeh; Hossein Ghadiri; Pardis Ghafarian; Habib Zaidi; Mohammad Reza Ay (Comput. Medical Imaging Graph., 2021)

Overall Survival Prediction in Renal Cell Carcinoma Patients Using Computed Tomography Radiomic and Clinical Information. - Zahra Khodabakhshi; Mehdi Amini; Shayan Mostafaei; Atlas Haddadi Avval; Mostafa Nazari; Mehrdad Oveisi; Isaac Shiri; Habib Zaidi (J. Digit. Imaging, 2021)

DeepTOFSino: A deep learning model for synthesizing full-dose time-of-flight bin sinograms from their corresponding low-dose sinograms. - Amirhossein Sanaat; Hossein Shooli; Sohrab Ferdowsi; Isaac Shiri; Hossein Arabi; Habib Zaidi (NeuroImage, 2021)

Overview of the HECKTOR Challenge at MICCAI 2022: Automatic Head and Neck Tumor Segmentation and Outcome Prediction in PET/CT. - Vincent Andrearczyk; Valentin Oreiller; Moamen Abobakr; Azadeh Akhavanallaf; Panagiotis Balermpas; Sarah Boughdad; Leo Capriotti; Joël Castelli; Catherine Cheze Le Rest; Pierre Decazes; Ricardo Correia 006; Dina El-Habashy; et al. (HECKTOR@MICCAI, 2022)

Deep learning with multiresolution handcrafted features for brain MRI segmentation. - Imene Mecheter; Maysam Abbod; Abbes Amira; Habib Zaidi (Artif. Intell. Medicine, 2022)

Non-contrast Cine Cardiac Magnetic Resonance image radiomics features and machine learning algorithms for myocardial infarction detection. - Elham Avard; Isaac Shiri; Ghasem Hajianfar; Hamid Abdollahi; Kiara Rezaei-Kalantari; Golnaz Houshmand; Kianosh Kasani; Ahmad Bitarafan-rajabi; Mohammad Reza Deevband; Mehrdad Oveisi; Habib Zaidi (Comput. Biol. Medicine, 2022)

Unsupervised pseudo CT generation using heterogenous multicentric CT/MR images and CycleGAN: Dosimetric assessment for 3D conformal radiotherapy. - Amir Jabbarpour; Seied Rabi Mahdavi; Alireza Vafaei Sadr; Golbarg Esmaili; Isaac Shiri; Habib Zaidi (Comput. Biol. Medicine, 2022)

Two-step machine learning to diagnose and predict involvement of lungs in COVID-19 and pneumonia using CT radiomics. - Pegah Moradi Khaniabadi; Yassine Bouchareb; Humoud Al Dhuhli; Isaac Shiri; Faiza Al Kindi; Bita Moradi Khaniabadi; Habib Zaidi; Arman Rahmim (Comput. Biol. Medicine, 2022)

Impact of feature harmonization on radiogenomics analysis: Prediction of EGFR and KRAS mutations from non-small cell lung cancer PET/CT images. - Isaac Shiri; Mehdi Amini; Mostafa Nazari; Ghasem Hajianfar; Atlas Haddadi Avval; Hamid Abdollahi; Mehrdad Oveisi; Hossein Arabi; Arman Rahmim; Habib Zaidi (Comput. Biol. Medicine, 2022)

COVID-19 prognostic modeling using CT radiomic features and machine learning algorithms: Analysis of a multi-institutional dataset of 14, 339 patients. - Isaac Shiri; Yazdan Salimi; Masoumeh Pakbin; Ghasem Hajianfar; Atlas Haddadi Avval; Amirhossein Sanaat; Shayan Mostafaei; Azadeh Akhavanallaf; Abdollah Saberi; Zahra Mansouri; Dariush Askari; Mohammadreza Ghasemian; et al. (Comput. Biol. Medicine, 2022)

Tensor Radiomics: Paradigm for Systematic Incorporation of Multi-Flavoured Radiomics Features. - Arman Rahmim; Amirhosein Toosi; Mohammad R. Salmanpour; Natalia Dubljevic; Ian Janzen; Isaac Shiri; Mohamad A. Ramezani; Ren Yuan; Cheryl Ho; Habib Zaidi; Calum MacAulay; Carlos F. Uribe; et al. (CoRR, 2022)

Brain MR images segmentation using 3D CNN with features recalibration mechanism for segmented CT generation. - Imene Mecheter; Maysam Abbod; Habib Zaidi; Abbes Amira (Neurocomputing, 2022)

COLI-Net: Deep learning-assisted fully automated COVID-19 lung and infection pneumonia lesion detection and segmentation from chest computed tomography images. - Isaac Shiri; Hossein Arabi; Yazdan Salimi; Amirhossein Sanaat; Azadeh Akhavanallaf; Ghasem Hajianfar; Dariush Askari; Shakiba Moradi; Zahra Mansouri; Masoumeh Pakbin; Saleh Sandoughdaran; Hamid Abdollahi; et al. (Int. J. Imaging Syst. Technol., 2022)

Deep learning-guided attenuation correction in the image domain for myocardial perfusion SPECT imaging. - Samaneh Mostafapour; Faeze Gholamiankhah; Sirwan Maroufpour; Mehdi Momennezhad; Mohsen Asadinezhad; Seyed Rasoul Zakavi; Hossein Arabi; Habib Zaidi (J. Comput. Des. Eng., 2022)

Myocardial Function Prediction After Coronary Artery Bypass Grafting Using MRI Radiomic Features and Machine Learning Algorithms. - Fatemeh Arian; Mehdi Amini; Shayan Mostafaei; Kiara Rezaei-Kalantari; Atlas Haddadi Avval; Zahra Shahbazi; Kianosh Kasani; Ahmad Bitarafan-rajabi; Saikat Chatterjee; Mehrdad Oveisi; Isaac Shiri; Habib Zaidi (J. Digit. Imaging, 2022)

Robust-Deep: A Method for Increasing Brain Imaging Datasets to Improve Deep Learning Models' Performance and Robustness. - Amirhossein Sanaat; Isaac Shiri; Sohrab Ferdowsi; Hossein Arabi; Habib Zaidi (J. Digit. Imaging, 2022)

Myocardial Perfusion SPECT Imaging Radiomic Features and Machine Learning Algorithms for Cardiac Contractile Pattern Recognition. - Maziar Sabouri; Ghasem Hajianfar; Zahra Hosseini; Mehdi Amini; Mobin Mohebi; Tahereh Ghaedian; Shabnam Madadi; Fereydoon Rastgou; Mehrdad Oveisi; Ahmad Bitarafan-rajabi; Isaac Shiri; Habib Zaidi (J. Digit. Imaging, 2023)

Post-revascularization Ejection Fraction Prediction for Patients Undergoing Percutaneous Coronary Intervention Based on Myocardial Perfusion SPECT Imaging Radiomics: a Preliminary Machine Learning Study. - Mobin Mohebi; Mehdi Amini; Mohammad Javad Alemzadeh-Ansari; Azin Alizadehasl; Ahmad Bitarafan-rajabi; Isaac Shiri; Habib Zaidi; Mahdi Orooji (J. Digit. Imaging, 2023)

Multi-institutional PET/CT image segmentation using federated deep transformer learning. - Isaac Shiri; Behrooz Razeghi; Alireza Vafaei Sadr; Mehdi Amini; Yazdan Salimi; Sohrab Ferdowsi; Peter Boor; Deniz Gündüz; Slava Voloshynovskiy; Habib Zaidi (Comput. Methods Programs Biomed., 2023)

Left Ventricular Myocardial Dysfunction Evaluation in Thalassemia Patients Using Echocardiographic Radiomic Features and Machine Learning Algorithms. - Haniyeh Taleie; Ghasem Hajianfar; Maziar Sabouri; Mozhgan Parsaee; Golnaz Houshmand; Ahmad Bitarafan-rajabi; Habib Zaidi; Isaac Shiri (J. Digit. Imaging, 2023)

Stable Diffusion Model-Based Scintigraphy Image Synthesis: Data Augmentation Toward Enhanced Multiclass Thyroid Diagnosis. - Ghasem Hajianfar; Maziar Sabouri; Abdollah Saberi Manesh; Soroush Bagheri; Mohsen Arabi; Seyed Rasoul Zakavi; Emran Askari; Ali Rasouli; Azin Asadzadeh; Atena Aghaee; Kourosh Fattahi; Ehsan Bayat; et al. (EUVIP, 2024)

Thyroidiomics: An Automated Pipeline for Segmentation and Classification of Thyroid Pathologies from Scintigraphy Images. - Maziar Sabouri; Shadab Ahamed; Azin Asadzadeh; Atlas Haddadi Avval; Soroush Bagheri; Mohsen Arabi; Seyed Rasoul Zakavi; Emran Askari; Ali Rasouli; Atena Aghaee; Mohaddese Sehati; Fereshteh Yousefirizi; et al. (EUVIP, 2024)

Single annotator versus multi-annotator: Challenge of segmenting two neighboring hippocampus head and body with high precision. - Hossein Arabi; Habib Zaidi (Biomed. Signal Process. Control., 2024)

An efficient dual-domain deep learning network for sparse-view CT reconstruction. - Chang Sun; Yazdan Salimi; Neroladaki Angeliki; Sana Boudabbous; Habib Zaidi (Comput. Methods Programs Biomed., 2024)

Segmentation-Free Outcome Prediction in Head and Neck Cancer: Deep Learning-based Feature Extraction from Multi-Angle Maximum Intensity Projections (MA-MIPs) of PET Images. - Amirhosein Toosi; Isaac Shiri; Habib Zaidi; Arman Rahmim (CoRR, 2024)

University Rankings Are Hurting Academia in Developing Countries: An Urgent Call to Action. - Mohamed L. Seghier; Habib Zaidi (Int. J. Imaging Syst. Technol., 2024)

PRIMIS: Privacy-preserving medical image sharing via deep sparsifying transform learning with obfuscation. - Isaac Shiri; Behrooz Razeghi; Sohrab Ferdowsi; Yazdan Salimi; Deniz Gündüz; Douglas Teodoro; Slava Voloshynovskiy; Habib Zaidi (J. Biomed. Informatics, 2024)

Transfer learning from T1-weighted to T2-weighted Magnetic resonance sequences for brain image segmentation. - Imene Mecheter; Maysam Abbod; Habib Zaidi; Abbes Amira (CAAI Trans. Intell. Technol., 2024)

Differentiation of COVID-19 pneumonia from other lung diseases using CT radiomic features and machine learning: A large multicentric cohort study. - Isaac Shiri; Yazdan Salimi; Abdollah Saberi; Masoumeh Pakbin; Ghasem Hajianfar; Atlas Haddadi Avval; Amirhossein Sanaat; Azadeh Akhavanallaf; Shayan Mostafaei; Zahra Mansouri; Dariush Askari; Mohammadreza Ghasemian; et al. (Int. J. Imaging Syst. Technol., 2024)

Impact of harmonization on the reproducibility of MRI radiomic features when using different scanners, acquisition parameters, and image pre-processing techniques: a phantom study. - Ghasem Hajianfar; Seyyed Ali Hosseini; Sara Bagherieh; Mehrdad Oveisi; Isaac Shiri; Habib Zaidi (Medical Biol. Eng. Comput., 2024)

Deep supervised transformer-based noise-aware network for low-dose PET denoising across varying count levels. - Mohammad Saber Azimi; Vahid Felfelian; Navid Zeraatkar; Habibollah Dadgar; Hossein Arabi; Habib Zaidi (Comput. Biol. Medicine, 2025)

Dual path transformer with element-wise attention and group cross-aggregation network for medical image segmentation. - Jie Cai; Haiyan Li; Habib Zaidi; Hao Zhou; Yaqun Huang (Comput. Electr. Eng., 2025)

Toward standardization: Assessing the reproducibility of radiomics features in partial volume-corrected brain PET images. - Mohammad Saber Azimi; Maryam Cheraghi; Fatemeh Mahdimaleki; Faezeh Mahdimaleki; Amirhossein Sanaat; Poul Flemming Høilund-Carlsen; Abass Alavi; Habib Zaidi (NeuroImage, 2025)

Deep learning-based triple-tracer brain PET scanning in a single session: A simulation study using clinical data. - Yiyi Hu; Amirhossein Sanaat; Gregory Mathoux; Eliluane Pirazzo Andrade Teixeira; Valentina Garibotto; Habib Zaidi (NeuroImage, 2025)

AI-Augmented Thyroid Scintigraphy for Robust Classification. - Maziar Sabouri; Ghasem Hajianfar; Alireza Rafiei Sardouei; Milad Yazdani; Azin Asadzadeh; Soroush Bagheri; Mohsen Arabi; Seyed Rasoul Zakavi; Emran Askari; Atena Aghaee; Dena Shahriari; Habib Zaidi; et al. (CoRR, 2025)

From Claims to Evidence: A Unified Framework and Critical Analysis of CNN vs. Transformer vs. Mamba in Medical Image Segmentation. - Pooya Mohammadi Kazaj; Giovanni Baj; Yazdan Salimi; Anselm W. Stark; Waldo Valenzuela; George CM. Siontis; Habib Zaidi; Mauricio Reyes 001; Christoph Graeni; Isaac Shiri (CoRR, 2025)