A U-Net Convolutional Neural Network with Multiclass Dice Loss for Automated Segmentation of Tumors and Lymph Nodes from Head and Neck Cancer PET/CT Images. - Shadab Ahamed; Luke Polson; Arman Rahmim (HECKTOR@MICCAI, 2022)

A cascaded deep network for automated tumor detection and segmentation in clinical PET imaging of diffuse large B-cell lymphoma. - Shadab Ahamed; Natalia Dubljevic; Ingrid Bloise; Claire Gowdy; Patrick Martineau; Don Wilson; Carlos F. Uribe; Arman Rahmim; Fereshteh Yousefirizi (Image Processing, 2022)

Convolutional neural network with a hybrid loss function for fully automated segmentation of lymphoma lesions in FDG PET images. - Fereshteh Yousefirizi; Natalia Dubljevic; Shadab Ahamed; Ingrid Bloise; Claire Gowdy; Joo Hyun O; Youssef Farag; Rodrigue de Schaetzen; Patrick Martineau; Don Wilson; Carlos F. Uribe; Arman Rahmim (Image Processing, 2022)

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset. - Shadab Ahamed; Yixi Xu; Ingrid Bloise; Joo Hyun O; Carlos F. Uribe; Rahul Dodhia; Juan Lavista Ferres; Arman Rahmim (Image Processing, 2023)

State-of-the-art object detection algorithms for small lesion detection in PSMA PET: use of rotational maximum intensity projection (MIP) images. - Amirhosein Toosi; Sara Harsini; Shadab Ahamed; Fereshteh Yousefirizi; François Bénard; Carlos F. Uribe; Arman Rahmim (Image Processing, 2023)

Generalized Dice Focal Loss trained 3D Residual UNet for Automated Lesion Segmentation in Whole-Body FDG PET/CT Images. - Shadab Ahamed; Arman Rahmim (CoRR, 2023)

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images. - Shadab Ahamed; Yixi Xu; Claire Gowdy; Joo Hyun O; Ingrid Bloise; Don Wilson; Patrick Martineau; François Bénard; Fereshteh Yousefirizi; Rahul Dodhia; Juan M. Lavista Ferres; William B. Weeks; et al. (CoRR, 2023)

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)

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset. - Shadab Ahamed; Yixi Xu; Ingrid Bloise; Joo H. O; Carlos F. Uribe; Rahul Dodhia; Juan Lavista Ferres; Arman Rahmim (CoRR, 2024)

IgCONDA-PET: Implicitly-Guided Counterfactual Diffusion for Detecting Anomalies in PET Images. - Shadab Ahamed; Yixi Xu; Arman Rahmim (CoRR, 2024)

AutoPET Challenge III: Testing the Robustness of Generalized Dice Focal Loss trained 3D Residual UNet for FDG and PSMA Lesion Segmentation from Whole-Body PET/CT Images. - Shadab Ahamed (CoRR, 2024)

DAWN-SI: Data-Aware and Noise-Informed Stochastic Interpolation for Solving Inverse Problems. - Shadab Ahamed; Eldad Haber (CoRR, 2024)

SlicerSPECTRecon: A 3D Slicer Extension for SPECT Image Reconstruction. - Obed Dzikunu; Maziar Sabouri; Shadab Ahamed; Carlos F. Uribe; Arman Rahmim; Lucas A. Polson (J. Open Source Softw., 2024)

Inversion of Magnetic Data Using Learned Dictionaries and Scale Space. - Shadab Ahamed; Simon Ghyselincks; Pablo Chang Huang Arias; Julian Kloiber; Yasin Ranjbar; Jingrong Tang; Niloufar Zakariaei; Eldad Haber (SSVM (2), 2025)

IgCONDA-PET: Weakly-supervised PET anomaly detection using implicitly-guided attention-conditional counterfactual diffusion modeling - a multi-center, multi-cancer, and multi-tracer study. - Shadab Ahamed; Arman Rahmim (Comput. Medical Imaging Graph., 2025)

PyTomography: A python library for medical image reconstruction. - Lucas A. Polson; Roberto Fedrigo; Chenguang Li; Maziar Sabouri; Obed Dzikunu; Shadab Ahamed; Nicolas A. Karakatsanis; Sara Kurkowska; Peyman Sheikhzadeh; Pedro L. Esquinas; Arman Rahmim; Carlos F. Uribe (SoftwareX, 2025)

Multiscale Training of Convolutional Neural Networks. - Niloufar Zakariaei; Shadab Ahamed; Eldad Haber; Moshe Eliasof (CoRR, 2025)

Adaptive Voxel-Weighted Loss Using L1 Norms in Deep Neural Networks for Detection and Segmentation of Prostate Cancer Lesions in PET/CT Images. - Obed Korshie Dzikunu; Shadab Ahamed; Amirhossein Toosi; Xiaoxiao Li; Arman Rahmim (CoRR, 2025)

Iterative Flow Matching - Path Correction and Gradual Refinement for Enhanced Generative Modeling. - Eldad Haber; Shadab Ahamed; Md Shahriar Rahim Siddiqui; Niloufar Zakariaei; Moshe Eliasof (CoRR, 2025)

Comprehensive Evaluation of Quantitative Measurements from Automated Deep Segmentations of PSMA PET/CT Images. - Obed Korshie Dzikunu; Amirhossein Toosi; Shadab Ahamed; Sara Harsini; François Bénard; Xiaoxiao Li; Arman Rahmim (CoRR, 2025)