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  1. Queen Mary University of London
  2. Research
  3. Publications

Publications: DR Shaheer Ullah Saeed

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Huang S, Xu T, Li J, Saeed SU, Shen Z, Barratt DC, Hu Y ( 2026 ) . PromptReg: Interactive Registration by “Corresponding Prompts” for Segment Anything Model (SAM) . IEEE Transactions on Image Processing vol. PP , ( 99 ) 1 - 1 .
Yang J, Thorley N, Abbasi AN, Punwani S, Tse Z, Hu Y, Saeed SU ( 2026 ) . Promptable segmentation with region exploration enables minimal-effort expert-level prostate cancer delineation . International Journal of Computer Assisted Radiology and Surgery1 - 9 .
Yi W, Wang Y, Yan W, Zhang H, Thorley N, Ng A, Punwani S, Bianco F et al. ( 2026 ) . Maximizing T2-Only Prostate Cancer Localization from Expected Diffusion Weighted Imaging .
Wang Y, Xu Y, Yi W, Saeed SU, Thorley N, Ng A, Zhou Y, Yan W et al. ( 2026 ) . ProFound: A moderate-sized vision foundation model for multi-task prostate imaging .
Chen Y, Ni S, Zhang J, Saeed SU, Wang Y, Ivanova A, Hargunani R, Liu C et al. ( 2026 ) . Retrieving Patient-Specific Radiomic Feature Sets for Transparent Knee MRI Assessment .
Latif S, Saeed SU, Hu Y, De Braud L, Yasmin E, Saridogan E, Mavrelos D ( 2026 ) . Quantitative analysis of uterine peristalsis in women with adenomyosis using optical flow for motion quantification . Reprod Biomed Online vol. 52 , ( 3 )
Min Z, Baum ZMC, Saeed SU, Ma S, Du X, Emberton M, Barratt DC, Taylor ZA et al. ( 2026 ) . Biomechanics-informed Non-rigid Medical Image Registration with Elasticity Theories . IEEE Transactions on Medical Imaging vol. PP , ( 99 ) 1 - 1 .
Yang J, Thorley N, Abbasi AN, Punwani S, Tse Z, Hu Y, Saeed SU ( 2026 ) . Promptable segmentation with region exploration enables minimal-effort expert-level prostate cancer delineation .
Chen Y, Ni S, Saeed SU, Ivanova A, Hargunani R, Huang J, Liu C, Hu Y ( 2026 ) . Radiomic Fingerprints for Knee MR Image Assessment . Lecture Notes in Computer Science vol. 16464 , 64 - 74 .
Huan, Wang, Thorley, Ng, Saeed SU, Emberton, Punwani, Kasivisvanathan et al. . Understanding the Transfer Limits of Vision Foundation Models . Conference: ISBI 2026
Huang S, Wang Y, Thorley N, Ng A, Saeed S, Emberton M, Punwani S, Kasivisvanathan V et al. ( 2026 ) . Understanding the Transfer Limits of Vision Foundation Models .
Chen Y, Ye Z, Saeed SU, Yu O, Ni S, Huang J, Hu Y ( 2026 ) . Radiomics-Integrated Deep Learning with Hierarchical Loss for Osteosarcoma Histology Classification .
Chen Y, Ni S, Li S, Saeed SU, Ivanova A, Hargunani R, Huang J, Liu C et al. ( 2026 ) . Interpretability and Individuality in Knee MRI: Patient-Specific Radiomic Fingerprint with Reconstructed Healthy Personas .
Wu X, Saeed SU, Wang Y, Coll EB, Hu Y ( 2026 ) . Policy to Assist Iteratively Local Segmentation: Optimising Modality and Location Selection for Prostate Cancer Localisation . Lecture Notes in Computer Science vol. 16241 , 328 - 337 .
Li Q, Saeed SU, Huang Y, Luo M, Yan Z, Chen J, Yang X, Ni D et al. ( 2025 ) . TUS-REC2024: A Challenge to Reconstruct 3D Freehand Ultrasound Without External Tracker .
Simangan T, Abbasi AN, Hu Y, Saeed SU ( 2025 ) . Cryo-RL: automating prostate cancer cryoablation planning with reinforcement learning .
Chen Y, Ni S, Saeed SU, Ivanova A, Hargunani R, Huang J, Liu C, Hu Y ( 2026 ) . Patient-Specific Radiomic Feature Selection with Reconstructed Healthy Persona of Knee MR Images . Lecture Notes in Computer Science . vol. 15973 , 441 - 451 .
Wu X, Saeed SU, Wang Y, Coll EB, Hu Y ( 2025 ) . Policy to Assist Iteratively Local Segmentation: Optimising Modality and Location Selection for Prostate Cancer Localisation .
Karam L, Wang Y, Kasivisvanathan V, Rusu M, Hu Y, Saeed SU ( 2026 ) . Promptable Cancer Segmentation Using Minimal Expert-Curated Data . Lecture Notes in Computer Science . vol. 15918 , 44 - 58 .
Tan C, Hu Y, Saeed SU ( 2026 ) . SPARS: Self-Play Adversarial Reinforcement Learning for Segmentation of Liver Tumours . Lecture Notes in Computer Science . vol. 15918 , 59 - 72 .
Saeed SU, Wang Y, Kasivisvanathan V, Davidson BR, Clarkson MJ, Hu Y, Alexander DC ( 2025 ) . Reasoning in machine vision: learning to think fast and slow .
Chen Y, Ni S, Saeed SU, Ivanova A, Hargunani R, Huang J, Liu C, Hu Y ( 2025 ) . Radiomic fingerprints for knee MR images assessment .
Latif S, Saeed SU, Hu Y, De Braud L, Yasmin E, Saridogan E, Mavrelos D ( 2025 ) . Quantitative analysis of uterine peristalsis in women with adenomyosis using optical flow for motion quantification . Reproductive BioMedicine Online vol. 52 , ( 3 )
Tan C, Hu Y, Saeed SU ( 2025 ) . SPARS: Self-Play Adversarial Reinforcement Learning for Segmentation of Liver Tumours .
Karam L, Wang Y, Kasivisvanathan V, Rusu M, Hu Y, Saeed SU ( 2025 ) . Promptable cancer segmentation using minimal expert-curated data .
Yi W, Wang Y, Thorley N, Ng A, Punwani S, Kasivisvanathan V, Barratt DC, Saeed SU et al. ( 2025 ) . T2-Only Prostate Cancer Prediction by Meta-Learning from BI-Parametric MR Imaging . Conference: 2025 IEEE 22nd International Symposium on Biomedical Imaging (ISBI) vol. 00 , 1 - 5 .
Saeed SU, Ramalhinho J, Montaña-Brown N, Bonmati E, Pereira SP, Davidson B, Clarkson MJ, Hu Y ( 2025 ) . Guided ultrasound acquisition for nonrigid image registration using reinforcement learning . Medical Image Analysis vol. 102 ,
Chen Y, Ni S, Ivanova A, Saeed SU, Hargunani R, Huang J, Liu C, Hu Y ( 2025 ) . Patient-specific radiomic feature selection with reconstructed healthy persona of knee MR images .
Saeed SU, Huang S, Ramalhinho J, Gayo IJMB, Montaña-Brown N, Bonmati E, Pereira SP, Davidson B et al. ( 2025 ) . Competing for Pixels: A Self-Play Algorithm for Weakly-Supervised Semantic Segmentation . IEEE Transactions on Pattern Analysis and Machine Intelligence vol. 47 , ( 2 ) 825 - 839 .
Saeed SU, Hu Y ( 2025 ) . Conditional Image Synthesis Using Generative Diffusion Models: Application . Generative Machine Learning Models in Medical Image Computing65 - 65 .
Saeed SU, others ( 2025 ) . Cryo-RL: automating prostate cancer cryoablation planning with reinforcement learning .
Saeed SU, Wang Y, Kasivisvanathan V, Davidson BR, Clarkson MJ, Hu Y, Alexander DC ( 2025 ) . Reasoning in machine vision: learning to think fast and slow . arXiv preprint arXiv:2506.22075
Li Q, Saeed SU, Huang Y, Luo M, Yan Z, Chen J, Yang X, Ni D et al. ( 2025 ) . TUS-REC2024: A Challenge to Reconstruct 3D Freehand Ultrasound Without External Tracker . arXiv preprint arXiv:2506.21765
Saeed SU, Hu Y ( 2024 ) . Conditional Image Synthesis Using Generative Diffusion Models: Application to Pathological Prostate MR Image Generation . Generative Machine Learning Models in Medical Image Computing , Springer Nature
Yi W, Wang Y, Thorley N, Ng A, Punwani S, Kasivisvanathan V, Barratt DC, Saeed SU et al. ( 2024 ) . T2-Only Prostate Cancer Prediction by Meta-Learning from Bi-Parametric MR Imaging .
Huang S, Xu T, Shen Z, Saeed SU, Yan W, Barratt D, Hu Y ( 2024 ) . One Registration is Worth Two Segmentations . Lecture Notes in Computer Science . vol. 15012 , 665 - 675 .
Huang S, Xu T, Shen Z, Saeed SU, Yan W, Barratt D, Hu Y ( 2024 ) . SAMReg: SAM-enabled Image Registration with ROI-based Correspondence .
Chen Y, Ivanova A, Saeed SU, Hargunani R, Huang J, Liu C, Hu Y ( 2024 ) . Segmentation by Registration-Enabled SAM Prompt Engineering Using Five Reference Images . Lecture Notes in Computer Science . vol. 15249 , 241 - 252 .
Min Z, Baum ZMC, Saeed SU, Emberton M, Barratt DC, Taylor ZA, Hu Y ( 2024 ) . Biomechanics-Informed Non-rigid Medical Image Registration and its Inverse Material Property Estimation with Linear and Nonlinear Elasticity . Lecture Notes in Computer Science . vol. 15002 , 564 - 574 .
Chen Y, Ivanova A, Saeed SU, Hargunani R, Huang J, Liu C, Hu Y ( 2024 ) . Segmentation by registration-enabled SAM prompt engineering using five reference images .
Min Z, Baum ZMC, Saeed SU, Emberton M, Barratt DC, Taylor ZA, Hu Y ( 2024 ) . Biomechanics-informed Non-rigid Medical Image Registration and its Inverse Material Property Estimation with Linear and Nonlinear Elasticity .
Latif S, Saeed SU, Hu Y, De Braud L, Atik Y, Yasmin E, Saridogan E, Mavrelos D ( 2024 ) . P-304 Quantitative analysis of uterine peristalsis using optical flow for motion quantification in women with moderate/severe adenomyosis undergoing frozen-thawed embryo transfer following prolonged downregulation with GnRHanalogue . Human Reproduction vol. 39 , ( Supplement_1 )
Pocius M, Yan W, Barratt DC, Emberton M, Clarkson MJ, Hu Y, Saeed SU ( 2024 ) . Weakly Supervised Localisation of Prostate Cancer Using Reinforcement Learning for Bi-Parametric MR Images . Conference: 2024 IEEE International Symposium on Biomedical Imaging (ISBI) vol. 00 , 1 - 5 .
Saeed SU, Huang S, Ramalhinho J, Gayo IJMB, Montaña-Brown N, Bonmati E, Pereira SP, Davidson B et al. ( 2024 ) . Competing for pixels: a self-play algorithm for weakly-supervised segmentation .
Huang S, Xu T, Shen Z, Saeed SU, Yan W, Barratt D, Hu Y ( 2024 ) . One registration is worth two segmentations .
Saeed SU, Ramalhinho J, Pinnock M, Shen Z, Fu Y, Montaña-Brown N, Bonmati E, Barratt DC et al. ( 2024 ) . Active learning using adaptable task-based prioritisation . Medical Image Analysis vol. 95 ,
Gayo IJMB, Saeed SU, Bonmati E, Barratt DC, Clarkson MJ, Hu Y ( 2024 ) . The distinct roles of reinforcement learning between pre-procedure and intra-procedure planning for prostate biopsy . International Journal of Computer Assisted Radiology and Surgery vol. 19 , ( 6 ) 1003 - 1012 .
Pocius M, Yan W, Barratt DC, Emberton M, Clarkson MJ, Hu Y, Saeed SU ( 2024 ) . Weakly supervised localisation of prostate cancer using reinforcement learning for bi-parametric MR images .
Fu Y, Li Y, Saeed SU, Clarkson MJ, Hu Y ( 2024 ) . Importance of Aligning Training Strategy with Evaluation for Diffusion Models in 3D Multiclass Segmentation . Lecture Notes in Computer Science . vol. 14533 , 86 - 95 .
Li Y, Fu Y, Gayo IJMB, Yang Q, Min Z, Saeed SU, Yan W, Wang Y et al. ( 2024 ) . Semi-weakly-supervised neural network training for medical image registration .
Saeed SU, Syer T, Yan W, Yang Q, Emberton M, Punwani S, Clarkson MJ, Barratt D et al. ( 2024 ) . Bi-parametric prostate MR image synthesis using pathology and sequence-conditioned stable diffusion . Medical imaging with deep learning . 814 - 828 .
Saeed SU, Huang S, Ramalhinho J, Gayo IJMB, Monta na-Brown N, Bonmati E, Pereira SP, Davidson B et al. ( 2024 ) . Competing for pixels: a self-play algorithm for weakly-supervised semantic segmentation . IEEE Transactions on Pattern Analysis and Machine Intelligence
Latif S, Saeed SU, Hu Y, De Braud L, Atik Y, Yasmin E, Saridogan E, Mavrelos D ( 2024 ) . Quantitative analysis of uterine peristalsis using optical flow for motion quantification in women with moderate/severe adenomyosis undergoing frozen-thawed embryo transfer following prolonged downregulation with GnRHanalogue . HUMAN REPRODUCTION . vol. 39 , I338 - I338 .
Huang S, Xu T, Shen Z, Saeed SU, Yan W, Barratt D, Hu Y ( 2024 ) . SAMReg: SAM-enabled image registration with ROI-based correspondence . arXiv preprint arXiv:2410.14083
Li Y, Fu Y, Gayo IJMB, Yang Q, Min Z, Saeed SU, Yan W, Wang Y et al. ( 2024 ) . Semi-weakly-supervised neural network training for medical image registration . arXiv preprint arXiv:2402.10728
Fu Y, Li Y, Saeed SU, Clarkson MJ, Hu Y ( 2023 ) . A Recycling Training Strategy for Medical Image Segmentation with Diffusion Denoising Models .
Fu Y, Li Y, Saeed SU, Clarkson MJ, Hu Y ( 2023 ) . A Recycling Training Strategy for Medical Image Segmentation with Diffusion Denoising Models . MELBA journal vol. 2 , ( Generative Models ) 507 - 546 .
Yi W, Stavrinides V, Baum ZMC, Yang Q, Barratt DC, Clarkson MJ, Hu Y, Saeed SU ( 2024 ) . Boundary-RL: Reinforcement Learning for Weakly-Supervised Prostate Segmentation in TRUS Images . Lecture Notes in Computer Science . vol. 14348 , 277 - 288 .
Li Y, Fu Y, Gayo IJMB, Yang Q, Min Z, Saeed SU, Yan W, Wang Y et al. ( 2023 ) . Prototypical few-shot segmentation for cross-institution male pelvic structures with spatial registration . Medical Image Analysis vol. 90 ,
Li Y, Fu Y, Gayo I, Yang Q, Min Z, Saeed S, Yan W, Wang Y et al. ( 2023 ) . Prototypical few-shot segmentation for cross-institution male pelvic structures with spatial registration .
Yi W, Stavrinides V, Baum ZMC, Yang Q, Barratt DC, Clarkson MJ, Hu Y, Saeed SU ( 2023 ) . Boundary-RL: Reinforcement Learning for Weakly-Supervised Prostate Segmentation in TRUS Images .
Fu Y, Li Y, Saeed SU, Clarkson MJ, Hu Y ( 2023 ) . Importance of Aligning Training Strategy with Evaluation for Diffusion Models in 3D Multiclass Segmentation .
Min Z, Baum ZMC, Saeed SU, Emberton M, Barratt DC, Taylor ZA, Hu Y ( 2023 ) . Non-rigid Medical Image Registration using Physics-informed Neural Networks . Lecture Notes in Computer Science . vol. 13939 , 601 - 613 .
Saeed SU, Syer T, Yan W, Yang Q, Emberton M, Punwani S, Clarkson MJ, Barratt DC et al. ( 2023 ) . Bi-parametric prostate MR image synthesis using pathology and sequence-conditioned stable diffusion .
Min Z, Baum ZMC, Saeed SU, Emberton M, Barratt DC, Taylor ZA, Hu Y ( 2023 ) . Non-rigid Medical Image Registration using Physics-informed Neural Networks .
Baum Z, Saeed S, Min Z, Hu Y, Barratt D ( 2023 ) . MR to ultrasound registration for prostate challenge-dataset . Medical Image Computing and Computer Assisted Intervention–MICCAI . vol. 2023 ,
Abdulaal A, Baum ZM, Clarkson M, Davidson B, Dowrick T, Foti S, Gao J, He C et al. ( 2023 ) . SARAMIS: Simulation Assets for Robotic Assisted and Minimally Invasive Surgery . 26121 - 26134 .
Saeed SU, Ramalhinho J, Pinnock M, Shen Z, Fu Y, Montaña-Brown N, Bonmati E, Barratt DC et al. ( 2022 ) . Active learning using adaptable task-based prioritisation .
Gayo IJ, Saeed SU, Barratt DC, Clarkson MJ, Hu Y ( 2022 ) . Strategising Template-Guided Needle Placement for MR-targeted Prostate Biopsy . Lecture Notes in Computer Science . vol. 13581 , 149 - 158 .
Gayo IJ, Saeed SU, Barratt DC, Clarkson MJ, Hu Y ( 2022 ) . Strategising template-guided needle placement for MR-targeted prostate biopsy .
Latif S, Saeed SU, Saridogan E, Hu Y, Mavrelos D ( 2022 ) . P-314 Quantitative analysis of uterine peristalsis using optical flow for motion quantification . Human Reproduction vol. 37 , ( Supplement_1 )
Ramalhinho J, Koo B, Montaña-Brown N, Saeed SU, Bonmati E, Gurusamy K, Pereira SP, Davidson B et al. ( 2022 ) . Deep hashing for global registration of untracked 2D laparoscopic ultrasound to CT . International Journal of Computer Assisted Radiology and Surgery vol. 17 , ( 8 ) 1461 - 1468 .
Saeed SU, Fu Y, Stavrinides V, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA et al. ( 2022 ) . Image quality assessment for machine learning tasks using meta-reinforcement learning .
Saeed SU, Fu Y, Stavrinides V, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA et al. ( 2022 ) . Image quality assessment for machine learning tasks using meta-reinforcement learning . Medical Image Analysis vol. 78 ,
Saeed SU, Yan W, Fu Y, Giganti F, Yang Q, Baum ZMC, Rusu M, Fan RE et al. ( 2022 ) . Image quality assessment by overlapping task-specific and task-agnostic measures: application to prostate multiparametric MR images for cancer segmentation . MELBA journal vol. 1 , ( IPMI 2021 ) 1 - 29 .
Saeed SU, Yan W, Fu Y, Giganti F, Yang Q, Baum ZMC, Rusu M, Fan RE et al. ( 2022 ) . Image quality assessment by overlapping task-specific and task-agnostic measures: application to prostate multiparametric MR images for cancer segmentation .
Latif S, Saeed SU, Saridogan E, Hu Y, Mavrelos D ( 2022 ) . Quantitative analysis of uterine peristalsis using optical flow for motion quantification . BJOG-AN INTERNATIONAL JOURNAL OF OBSTETRICS AND GYNAECOLOGY . vol. 129 , 183 - 184 .
Saeed SU, Fu Y, Stavrinides V, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA et al. ( 2021 ) . Adaptable Image Quality Assessment Using Meta-Reinforcement Learning of Task Amenability . Lecture Notes in Computer Science . vol. 12967 , 191 - 201 .
Chalcroft LF, Qu J, Martin SA, Gayo IJ, Minore GV, Singh IR, Saeed SU, Yang Q et al. ( 2021 ) . Development and Evaluation of Intraoperative Ultrasound Segmentation with Negative Image Frames and Multiple Observer Labels . Lecture Notes in Computer Science . vol. 12967 , 25 - 34 .
Saeed SU, Fu Y, Stavrinides V, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA et al. ( 2021 ) . Adaptable image quality assessment using meta-reinforcement learning of task amenability .
Chalcroft LF, Qu J, Martin SA, Gayo IJ, Minore GV, Singh IR, Saeed SU, Yang Q et al. ( 2021 ) . Development and evaluation of intraoperative ultrasound segmentation with negative image frames and multiple observer labels .
Saeed SU, Fu Y, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA, Barratt DC et al. ( 2021 ) . Learning Image Quality Assessment by Reinforcing Task Amenable Data Selection . Lecture Notes in Computer Science . vol. 12729 , 755 - 766 .
Saeed SU, Fu Y, Baum ZMC, Yang Q, Rusu M, Fan RE, Sonn GA, Barratt DC et al. ( 2021 ) . Learning image quality assessment by reinforcing task amenable data selection .
Fu Y, Brown NM, Saeed SU, Casamitjana A, Baum ZMC, Delaunay R, Yang Q, Grimwood A et al. ( 2020 ) . DeepReg: a deep learning toolkit for medical image registration .
Fu Y, Brown N, Saeed S, Casamitjana A, Baum Z, Delaunay R, Yang Q, Grimwood A et al. ( 2020 ) . DeepReg: a deep learning toolkit for medical image registration . The Journal of Open Source Software vol. 5 , ( 55 )
Saeed SU, Taylor ZA, Pinnock MA, Emberton M, Barratt DC, Hu Y ( 2020 ) . Prostate Motion Modelling Using Biomechanically-Trained Deep Neural Networks on Unstructured Nodes . Lecture Notes in Computer Science . vol. 12264 , 650 - 659 .
Brown NM, Fu Y, Saeed SU, Casamitjana A, Baum ZMC, Delaunay R, Yang Q, Grimwood A et al. ( 2020 ) . Introduction to Medical Image Registration with DeepReg, Between Old and New .
Saeed SU, Taylor ZA, Pinnock MA, Emberton M, Barratt DC, Hu Y ( 2020 ) . Prostate motion modelling using biomechanically-trained deep neural networks on unstructured nodes .
Montana Brown N, Fu Y, Saeed SU, Casamitjana A, Baum ZMC, Delaunay R, Yang Q, Grimwood A et al. ( 2020 ) . Introduction to medical image registration with deepreg, between old and new . arXiv e-printsarXiv - 2009 .
Min Z, Baum ZMC, Saeed SU, Emberton M, Barratt DC, Taylor ZA, Hu Y . 1 Details of Equations .
Sidiqi, wang, Saeed SU, Huang, Alexander, Hu . Continual Pretraining Prostate MRI ViT Encoder for Task Alignment . Conference: ISBI 2026
Saeed SU . Cryo-RL: automating prostate cancer cryoablation planning with reinforcement learning . Conference: International Conference on Medical Imaging and Computer-Aided Diagnosis (MICAD) 2025
Chen, Ye, Saeed SU, Yu, Ni, Huang, Hu . Radiomics-Integrated Deep Learning with Hierarchical Loss for Osteosarcoma Histology Classification . Conference: ISBI 2026
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