Prostate Motion Modelling Using Biomechanically-Trained Deep Neural Networks on Unstructured Nodes. - Shaheer U. Saeed; Zeike A. Taylor; Mark A. Pinnock; Mark Emberton; Dean C. Barratt; Yipeng Hu (MICCAI (4), 2020)

Introduction to Medical Image Registration with DeepReg, Between Old and New. - Nina Montaña Brown; Yunguan Fu; Shaheer U. Saeed; Adrià Casamitjana; Zachary M. C. Baum; Rémi Delaunay; Qianye Yang; Alex Grimwood; Zhe Min; Ester Bonmati; Tom Vercauteren; Matthew J. Clarkson; et al. (CoRR, 2020)

DeepReg: a deep learning toolkit for medical image registration. - Yunguan Fu; Nina Montaña Brown; Shaheer U. Saeed; Adrià Casamitjana; Zachary Baum; Rémi Delaunay; Qianye Yang; Alexander Grimwood; Zhe Min; Stefano B. Blumberg; Juan Eugenio Iglesias; Dean C. Barratt; et al. (J. Open Source Softw., 2020)

DeepReg: a deep learning toolkit for medical image registration. - Yunguan Fu; Nina Montaña Brown; Shaheer U. Saeed; Adrià Casamitjana; Zachary M. C. Baum; Rémi Delaunay; Qianye Yang; Alexander Grimwood; Zhe Min; Stefano B. Blumberg; Juan Eugenio Iglesias; Dean C. Barratt; et al. (Zenodo, 2020)

Learning Image Quality Assessment by Reinforcing Task Amenable Data Selection. - Shaheer U. Saeed; Yunguan Fu; Zachary M. C. Baum; Qianye Yang; Mirabela Rusu; Richard E. Fan; Geoffrey A. Sonn; Dean C. Barratt; Yipeng Hu (IPMI, 2021)

Development and Evaluation of Intraoperative Ultrasound Segmentation with Negative Image Frames and Multiple Observer Labels. - Liam F. Chalcroft; Jiongqi Qu; Sophie A. Martin; Iani J. M. B. Gayo; Giulio V. Minore; Imraj R. D. Singh; Shaheer U. Saeed; Qianye Yang; Zachary M. C. Baum; André Altmann; Yipeng Hu (ASMUS@MICCAI, 2021)

Adaptable Image Quality Assessment Using Meta-Reinforcement Learning of Task Amenability. - Shaheer U. Saeed; Yunguan Fu; Vasilis Stavrinides; Zachary M. C. Baum; Qianye Yang; Mirabela Rusu; Richard E. Fan; Geoffrey A. Sonn; J. Alison Noble; Dean C. Barratt; Yipeng Hu (ASMUS@MICCAI, 2021)

Strategising Template-Guided Needle Placement for MR-targeted Prostate Biopsy. - Iani J. M. B. Gayo; Shaheer U. Saeed; Dean C. Barratt; Matthew J. Clarkson; Yipeng Hu (CaPTion@MICCAI, 2022)

Deep hashing for global registration of untracked 2D laparoscopic ultrasound to CT. - João Ramalhinho; Bongjin Koo; Nina Montaña Brown; Shaheer U. Saeed; Ester Bonmati; Kurinchi Gurusamy; Stephen P. Pereira; Brian R. Davidson; Yipeng Hu; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2022)

Image quality assessment by overlapping task-specific and task-agnostic measures: application to prostate multiparametric MR images for cancer segmentation. - Shaheer U. Saeed; Wen Yan; Yunguan Fu; Francesco Giganti; Qianye Yang; Zachary M. C. Baum; Mirabela Rusu; Richard E. Fan; Geoffrey A. Sonn; Mark Emberton; Dean C. Barratt; Yipeng Hu (CoRR, 2022)

Image quality assessment for machine learning tasks using meta-reinforcement learning. - Shaheer U. Saeed; Yunguan Fu; Vasilis Stavrinides; Zachary M. C. Baum; Qianye Yang; Mirabela Rusu; Richard E. Fan; Geoffrey A. Sonn; J. Alison Noble; Dean C. Barratt; Yipeng Hu (Medical Image Anal., 2022)

Cross-institution Male Pelvic Structures. - Yiwen Li; Yunguan Fu; Iani J. M. B. Gayo; Qianye Yang; Zhe Min; Shaheer U. Saeed; Wen Yan; Yipei Wang; J. Alison Noble; Mark Emberton; Matthew J. Clarkson; Henkjan Huisman; et al. (Zenodo, 2022)

Non-rigid Medical Image Registration using Physics-informed Neural Networks. - Zhe Min; Zachary M. C. Baum; Shaheer U. Saeed; Mark Emberton; Dean C. Barratt; Zeike A. Taylor; Yipeng Hu (IPMI, 2023)

Importance of Aligning Training Strategy with Evaluation for Diffusion Models in 3D Multiclass Segmentation. - Yunguan Fu; Yiwen Li; Shaheer U. Saeed; Matthew J. Clarkson; Yipeng Hu (DGM4MICCAI, 2023)

Bi-parametric prostate MR image synthesis using pathology and sequence-conditioned stable diffusion. - Shaheer U. Saeed; Tom Syer; Wen Yan; Qianye Yang; Mark Emberton; Shonit Punwani; Matthew John Clarkson; Dean C. Barratt; Yipeng Hu (MIDL, 2023)

Boundary-RL: Reinforcement Learning for Weakly-Supervised Prostate Segmentation in TRUS Images. - Weixi Yi; Vasilis Stavrinides; Zachary M. C. Baum; Qianye Yang; Dean C. Barratt; Matthew J. Clarkson; Yipeng Hu; Shaheer U. Saeed (MLMI@MICCAI (1), 2023)

SARAMIS: Simulation Assets for Robotic Assisted and Minimally Invasive Surgery. - Nina Montaña Brown; Shaheer U. Saeed; Ahmed Abdulaal; Thomas Dowrick; Yakup Kilic; Sophie Wilkinson; Jack Gao; Meghavi Mashar; Chloe He 002; Alkisti Stavropoulou; Emma Thomson; Zachary M. C. Baum; et al. (NeurIPS, 2023)

A Recycling Training Strategy for Medical Image Segmentation with Diffusion Denoising Models. - Yunguan Fu; Yiwen Li; Shaheer U. Saeed; Matthew J. Clarkson; Yipeng Hu (CoRR, 2023)

Prototypical few-shot segmentation for cross-institution male pelvic structures with spatial registration. - Yiwen Li; Yunguan Fu; Iani J. M. B. Gayo; Qianye Yang; Zhe Min; Shaheer U. Saeed; Wen Yan; Yipei Wang; J. Alison Noble; Mark Emberton; Matthew J. Clarkson; Henkjan Huisman; et al. (Medical Image Anal., 2023)

Weakly Supervised Localisation of Prostate Cancer Using Reinforcement Learning for Bi-Parametric MR Images. - Martynas Pocius; Wen Yan; Dean C. Barratt; Mark Emberton; Matthew J. Clarkson; Yipeng Hu; Shaheer U. Saeed (ISBI, 2024)

One Registration is Worth Two Segmentations. - Shiqi Huang; Tingfa Xu; Ziyi Shen; Shaheer Ullah Saeed; Wen Yan; Dean C. Barratt; Yipeng Hu (MICCAI (12), 2024)

Biomechanics-Informed Non-rigid Medical Image Registration and its Inverse Material Property Estimation with Linear and Nonlinear Elasticity. - Zhe Min; Zachary M. C. Baum; Shaheer U. Saeed; Mark Emberton; Dean C. Barratt; Zeike A. Taylor; Yipeng Hu (MICCAI (2), 2024)

Segmentation by Registration-Enabled SAM Prompt Engineering Using Five Reference Images. - Yaxi Chen; Aleksandra Ivanova; Shaheer U. Saeed; Rikin Hargunani; Jie Huang; Chaozong Liu; Yipeng Hu (WBIR, 2024)

Semi-weakly-supervised neural network training for medical image registration. - Yiwen Li; Yunguan Fu; Iani J. M. B. Gayo; Qianye Yang; Zhe Min; Shaheer U. Saeed; Wen Yan; Yipei Wang; J. Alison Noble; Mark Emberton; Matthew J. Clarkson; Dean C. Barratt; et al. (CoRR, 2024)

Competing for pixels: a self-play algorithm for weakly-supervised segmentation. - Shaheer U. Saeed; Shiqi Huang; João Ramalhinho; Iani J. M. B. Gayo; Nina Montaña Brown; Ester Bonmati; Stephen P. Pereira; Brian R. Davidson; Dean C. Barratt; Matthew J. Clarkson; Yipeng Hu (CoRR, 2024)

SAMReg: SAM-enabled Image Registration with ROI-based Correspondence. - Shiqi Huang; Tingfa Xu; Ziyi Shen; Shaheer Ullah Saeed; Wen Yan; Dean C. Barratt; Yipeng Hu (CoRR, 2024)

Active learning using adaptable task-based prioritisation. - Shaheer U. Saeed; João Ramalhinho; Mark A. Pinnock; Ziyi Shen; Yunguan Fu; Nina Montaña Brown; Ester Bonmati; Dean C. Barratt; Stephen P. Pereira; Brian R. Davidson; Matthew J. Clarkson; Yipeng Hu (Medical Image Anal., 2024)

The distinct roles of reinforcement learning between pre-procedure and intra-procedure planning for prostate biopsy. - Iani J. M. B. Gayo; Shaheer U. Saeed; Ester Bonmati; Dean C. Barratt; Matthew J. Clarkson; Yipeng Hu (Int. J. Comput. Assist. Radiol. Surg., 2024)

T2-Only Prostate Cancer Prediction by Meta-Learning from BI-Parametric MR Imaging. - Weixi Yi; Yipei Wang; Natasha Thorley; Alexander Ng; Shonit Punwani; Veeru Kasivisvanathan; Dean C. Barratt; Shaheer U. Saeed; Yipeng Hu (ISBI, 2025)

Promptable Cancer Segmentation Using Minimal Expert-Curated Data. - Lynn Karam; Yipei Wang; Veeru Kasivisvanathan; Mirabela Rusu; Yipeng Hu; Shaheer U. Saeed (MIUA (3), 2025)

SPARS: Self-Play Adversarial Reinforcement Learning for Segmentation of Liver Tumours. - Catalina Tan; Yipeng Hu; Shaheer U. Saeed (MIUA (3), 2025)

Competing for Pixels: A Self-Play Algorithm for Weakly-Supervised Semantic Segmentation. - Shaheer U. Saeed; Shiqi Huang; João Ramalhinho; Iani J. M. B. Gayo; Nina Montaña Brown; Ester Bonmati; Stephen P. Pereira; Brian R. Davidson; Dean C. Barratt; Matthew J. Clarkson; Yipeng Hu (IEEE Trans. Pattern Anal. Mach. Intell., 2025)

Patient-specific radiomic feature selection with reconstructed healthy persona of knee MR images. - Yaxi Chen; Simin Ni; Aleksandra Ivanova; Shaheer U. Saeed; Rikin Hargunani; Jie Huang; Chaozong Liu; Yipeng Hu (CoRR, 2025)

Radiomic fingerprints for knee MR images assessment. - Yaxi Chen; Simin Ni; Shaheer U. Saeed; Aleksandra Ivanova; Rikin Hargunani; Jie Huang; Chaozong Liu; Yipeng Hu (CoRR, 2025)

TUS-REC2024: A Challenge to Reconstruct 3D Freehand Ultrasound Without External Tracker. - Qi Li 030; Shaheer U. Saeed; Yuliang Huang; Mingyuan Luo; Zhongnuo Yan; Jiongquan Chen; Xin Yang 009; Dong Ni 001; Nektarios Winter; Phuc Nguyen; Lucas Steinberger; Caelan Haney; et al. (CoRR, 2025)

Reasoning in machine vision: learning to think fast and slow. - Shaheer U. Saeed; Yipei Wang; Veeru Kasivisvanathan; Brian R. Davidson; Matthew J. Clarkson; Yipeng Hu; Daniel C. Alexander (CoRR, 2025)