Registration of Video Images to Tomographic Images by Optimising Mutual Information Using Texture Mapping. - Matthew J. Clarkson; Daniel Rueckert; Andrew P. King; Philip J. Edwards; Derek L. G. Hill; David J. Hawkes (MICCAI, 1999)

Registration of multiple video images to preoperative CT for image-guided surgery. - Matthew J. Clarkson; Daniel Rueckert; Derek L. G. Hill; David John Hawkes (Image Processing, 1999)

Volume and Shape Preservation of Enhancing Lesions when Applying Non-rigid Registration to a Time Series of Contrast Enhancing MR Breast Images. - Christine Tanner; Julia A. Schnabel; Daniel Chung; Matthew J. Clarkson; Daniel Rueckert; Derek L. G. Hill; David J. Hawkes (MICCAI, 2000)

Multiple 2D video/3D medical image registration algorithm. - Matthew J. Clarkson; Daniel Rueckert; Derek L. G. Hill; David John Hawkes (Image Processing, 2000)

Non-rigid registration using higher-order mutual information. - Daniel Rueckert; Matthew J. Clarkson; Derek L. G. Hill; David John Hawkes (Image Processing, 2000)

Stereo Augmented Reality in the Surgical Microscope. - Andrew P. King; Philip J. Edwards; Calvin R. Maurer Jr.; Darryl A. de Cunha; Ronald P. Gaston; Matthew J. Clarkson; Derek L. G. Hill; David J. Hawkes; Michael R. Fenlon; Anthony J. Strong; Tim C. S. Cox; Michael J. Gleeson (Presence Teleoperators Virtual Environ., 2000)

Using Photo-Consistency to Register 2D Optical Images of the Human Face to a 3D Surface Model. - Matthew J. Clarkson; Daniel Rueckert; Derek L. G. Hill; David J. Hawkes (IEEE Trans. Pattern Anal. Mach. Intell., 2001)

Improved Maximum a Posteriori Cortical Segmentation by Iterative Relaxation of Priors. - Manuel Jorge Cardoso; Matthew J. Clarkson; Gerard R. Ridgway; Marc Modat; Nick C. Fox; Sébastien Ourselin (MICCAI (1), 2009)

Comparison of phantom and registration scaling corrections using the ADNI cohort. - Matthew J. Clarkson; Sébastien Ourselin; Casper Nielsen; Kelvin K. Leung; Josephine Barnes; Jennifer L. Whitwell; Jeffrey L. Gunter; Derek L. G. Hill; Michael W. Weiner; Clifford R. Jack Jr.; Nick C. Fox (NeuroImage, 2009)

Locally weighted Markov random fields for cortical segmentation. - Manuel Jorge Cardoso; Matthew J. Clarkson; Marc Modat; Gerard R. Ridgway; Sébastien Ourselin (ISBI, 2010)

Combined Reconstruction and Registration of Digital Breast Tomosynthesis. - Guang Yang 006; John H. Hipwell; Matthew J. Clarkson; Christine Tanner; Thomy Mertzanidou; Spencer Gunn; Sébastien Ourselin; David J. Hawkes; Simon R. Arridge (Digital Mammography / IWDM, 2010)

A Framework for Using Diffusion Weighted Imaging to Improve Cortical Parcellation. - Matthew J. Clarkson; Ian B. Malone; Marc Modat; Kelvin K. Leung; Natalie S. Ryan; Daniel C. Alexander; Nick C. Fox; Sébastien Ourselin (MICCAI (1), 2010)

Increasing Power to Predict Mild Cognitive Impairment Conversion to Alzheimer's Disease Using Hippocampal Atrophy Rate and Statistical Shape Models. - Kelvin K. Leung; Kai-Kai Shen; Josephine Barnes; Gerard R. Ridgway; Matthew J. Clarkson; Jurgen Fripp; Olivier Salvado; Fabrice Mériaudeau; Nick C. Fox; Pierrick Bourgeat (MICCAI (2), 2010)

Head size, age and gender adjustment in MRI studies: a necessary nuisance? - Josephine Barnes; Gerard R. Ridgway; Jonathan W. Bartlett; Susie M. D. Henley; Manja Lehmann; Nicola Z. Hobbs; Matthew J. Clarkson; David G. MacManus; Sébastien Ourselin; Nick C. Fox (NeuroImage, 2010)

Automated cross-sectional and longitudinal hippocampal volume measurement in mild cognitive impairment and Alzheimer's disease. - Kelvin K. Leung; Josephine Barnes; Gerard R. Ridgway; Jonathan W. Bartlett; Matthew J. Clarkson; Kate E. Macdonald; Norbert Schuff; Nick C. Fox; Sébastien Ourselin (NeuroImage, 2010)

Robust atrophy rate measurement in Alzheimer's disease using multi-site serial MRI: Tissue-specific intensity normalization and parameter selection. - Kelvin K. Leung; Matthew J. Clarkson; Jonathan W. Bartlett; Shona Clegg; Clifford R. Jack Jr.; Michael W. Weiner; Nick C. Fox; Sébastien Ourselin (NeuroImage, 2010)

Progressive logopenic/phonological aphasia: Erosion of the language network. - Jonathan D. Rohrer; Gerard R. Ridgway; Sebastian J. Crutch; Julia C. Hailstone; Johanna C. Goll; Matthew J. Clarkson; Simon Mead; Jonathan Beck; Cath Mummery; Sébastien Ourselin; Elizabeth K. Warrington; Martin Rossor; et al. (NeuroImage, 2010)

On the Extraction of Topologically Correct Thickness Measurements Using Khalimsky's Cubic Complex. - Manuel Jorge Cardoso; Matthew J. Clarkson; Marc Modat; Sébastien Ourselin (IPMI, 2011)

An Event-Based Disease Progression Model and Its Application to Familial Alzheimer's Disease. - Hubert M. J. Fonteijn; Matthew J. Clarkson; Marc Modat; Josephine Barnes; Manja Lehmann; Sébastien Ourselin; Nick C. Fox; Daniel C. Alexander (IPMI, 2011)

Cross-sectional analysis using voxel or surface based cortical thickness methods: A comparison study. - Matthew J. Clarkson; Manuel Jorge Cardoso; Marc Modat; Gerard R. Ridgway; Kelvin K. Leung; Jonathan D. Rohrer; Nick C. Fox; Sébastien Ourselin (ISBI, 2011)

Longitudinal Cortical Thickness Estimation Using Khalimsky's Cubic Complex. - Manuel Jorge Cardoso; Matthew J. Clarkson; Marc Modat; Sébastien Ourselin (MICCAI (2), 2011)

Topologically correct cortical segmentation using Khalimsky's cubic complex framework. - Manuel Jorge Cardoso; Matthew J. Clarkson; Marc Modat; Hugues Talbot; Michel Couprie; Sébastien Ourselin (Image Processing, 2011)

LoAd: A locally adaptive cortical segmentation algorithm. - Manuel Jorge Cardoso; Matthew J. Clarkson; Gerard R. Ridgway; Marc Modat; Nick C. Fox; Sébastien Ourselin (NeuroImage, 2011)

A comparison of voxel and surface based cortical thickness estimation methods. - Matthew J. Clarkson; Manuel Jorge Cardoso; Gerard R. Ridgway; Marc Modat; Kelvin K. Leung; Jonathan D. Rohrer; Nick C. Fox; Sébastien Ourselin (NeuroImage, 2011)

Cortical Folding Analysis on Patients with Alzheimer's Disease and Mild Cognitive Impairment. - David M. Cash; Andrew Melbourne; Marc Modat; Manuel Jorge Cardoso; Matthew J. Clarkson; Nick C. Fox; Sébastien Ourselin (MICCAI (3), 2012)

Explicit contact modeling for surgical computer guidance and simulation. - Stian Flage Johnsen; Zeike A. Taylor; Matthew J. Clarkson; Stephen A. Thompson; M. Hu; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Sébastien Ourselin (Image-Guided Procedures, 2012)

An event-based model for disease progression and its application in familial Alzheimer's disease and Huntington's disease. - Hubert M. J. Fonteijn; Marc Modat; Matthew J. Clarkson; Josephine Barnes; Manja Lehmann; Nicola Z. Hobbs; Rachael I. Scahill; Sarah J. Tabrizi; Sébastien Ourselin; Nick C. Fox; Daniel C. Alexander (NeuroImage, 2012)

2D-3D Pose Tracking of Rigid Instruments in Minimally Invasive Surgery. - Max Allan; Steve Thompson; Matthew J. Clarkson; Sébastien Ourselin; David J. Hawkes; John D. Kelly; Danail Stoyanov (IPCAI, 2014)

Fast Semi-dense Surface Reconstruction from Stereoscopic Video in Laparoscopic Surgery. - Johannes Totz; Stephen A. Thompson; Danail Stoyanov; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Matthew J. Clarkson (IPCAI, 2014)

A Computer Assisted Planning System for the Placement of sEEG Electrodes in the Treatment of Epilepsy. - Gergely Zombori; Roman Rodionov; Mark Nowell; Maria A. Zuluaga; Matthew J. Clarkson; Caroline Micallef; Beate Diehl; Tim Wehner; A. Miserochi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (IPCAI, 2014)

Database-Based Estimation of Liver Deformation under Pneumoperitoneum for Surgical Image-Guidance and Simulation. - Stian Flage Johnsen; Stephen A. Thompson; Matthew J. Clarkson; Marc Modat; Yi Song; Johannes Totz; Kurinchi Gurusamy; Brian R. Davidson; Zeike A. Taylor; David J. Hawkes; Sébastien Ourselin (MICCAI (2), 2015)

Accuracy validation of an image guided laparoscopy system for liver resection. - Stephen A. Thompson; Johannes Totz; Yi Song; Stian Flage Johnsen; Danail Stoyanov; Sébastien Ourselin; Kurinchi Gurusamy; Crispin Schneider; Brian R. Davidson; David J. Hawkes; Matthew J. Clarkson (Image-Guided Procedures, 2015)

The NifTK software platform for image-guided interventions: platform overview and NiftyLink messaging. - Matthew J. Clarkson; Gergely Zombori; Steve Thompson; Johannes Totz; Yi Song; Miklos Espak; Stian Flage Johnsen; David J. Hawkes; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2015)

NiftySim: A GPU-based nonlinear finite element package for simulation of soft tissue biomechanics. - Stian Flage Johnsen; Zeike A. Taylor; Matthew J. Clarkson; John H. Hipwell; Marc Modat; Björn Eiben; Lianghao Han; Yipeng Hu; Thomy Mertzanidou; David J. Hawkes; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2015)

Detection and modelling of contacts in explicit finite-element simulation of soft tissue biomechanics. - Stian Flage Johnsen; Zeike A. Taylor; Lianghao Han; Yipeng Hu; Matthew J. Clarkson; David J. Hawkes; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2015)

Locally rigid, vessel-based registration for laparoscopic liver surgery. - Yi Song; Johannes Totz; Steve Thompson; Stian Flage Johnsen; Dean C. Barratt; Crispin Schneider; Kurinchi Gurusamy; Brian R. Davidson; Sébastien Ourselin; David J. Hawkes; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2015)

Assessment of Electromagnetic Tracking Accuracy for Endoscopic Ultrasound. - Ester Bonmati; Yipeng Hu; Kurinchi Gurusamy; Brian R. Davidson; Stephen P. Pereira; Matthew J. Clarkson; Dean C. Barratt (CARE@MICCAI, 2016)

Hand-eye calibration for rigid laparoscopes using an invariant point. - Stephen A. Thompson; Danail Stoyanov; Crispin Schneider; Kurinchi Gurusamy; Sébastien Ourselin; Brian R. Davidson; David J. Hawkes; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2016)

Towards Image-Guided Pancreas and Biliary Endoscopy: Automatic Multi-organ Segmentation on Abdominal CT with Dense Dilated Networks. - Eli Gibson; Francesco Giganti; Yipeng Hu; Ester Bonmati; Steve Bandula; Kurinchi Gurusamy; Brian R. Davidson; Stephen P. Pereira; Matthew J. Clarkson; Dean C. Barratt (MICCAI (1), 2017)

Deep residual networks for automatic segmentation of laparoscopic videos of the liver. - Eli Gibson; Maria R. Robu; Stephen A. Thompson; Eddie Edwards; Crispin Schneider; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Dean C. Barratt; Matthew J. Clarkson (Image-Guided Procedures, 2017)

Breathing motion compensated registration of laparoscopic liver ultrasound to CT. - João Ramalhinho; Maria Robu; Stephen A. Thompson; Philip J. Edwards; Crispin Schneider; Kurinchi Gurusamy; David J. Hawkes; Brian R. Davidson; Dean C. Barratt; Matthew J. Clarkson (Image-Guided Procedures, 2017)

On pattern selection for laparoscope calibration. - Stephen A. Thompson; Yannic Meuer; Eddie Edwards; João Ramalhinho; Maria Ruxandra Robu; Danail Stoyanov; Sébastien Ourselin; Brian R. Davidson; David J. Hawkes; Matthew J. Clarkson (Image-Guided Procedures, 2017)

Intelligent viewpoint selection for efficient CT to video registration in laparoscopic liver surgery. - Maria Robu; Philip J. Edwards; João Ramalhinho; Stephen A. Thompson; Brian R. Davidson; David J. Hawkes; Danail Stoyanov; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2017)

Development and Phantom Validation of a 3-D-Ultrasound-Guided System for Targeting MRI-Visible Lesions During Transrectal Prostate Biopsy. - Yipeng Hu; Veeru Kasivisvanathan; Lucy A. M. Simmons; Matthew J. Clarkson; Stephen A. Thompson; Taimur T. Shah; Hashim Uddin Ahmed; Shonit Punwani; David J. Hawkes; Mark Emberton; Caroline M. Moore; Dean C. Barratt (IEEE Trans. Biomed. Eng., 2017)

Spectral Imaging Of Thermal Damage Induced During Microwave Ablation In The Liver. - Neil T. Clancy; Kurinchi Gurusamy; Geoffrey Jones; Brian R. Davidson; Matthew J. Clarkson; David J. Hawkes; Danail Stoyanov (EMBC, 2018)

Augmented reality needle ablation guidance tool for irreversible electroporation in the pancreas. - Timur Kuzhagaliyev; Neil T. Clancy; Mirek Janatka; Kevin Tchaka; Francisco Vasconcelos 001; Matthew J. Clarkson; Kurinchi Gurusamy; David J. Hawkes; Brian R. Davidson; Danail Stoyanov (Image-Guided Procedures, 2018)

Determination of optimal ultrasound planes for the initialisation of image registration during endoscopic ultrasound-guided procedures. - Ester Bonmati; Yipeng Hu; Eli Gibson; Laura Uribarri; Geri Keane; Kurinchi Gurusamy; Brian R. Davidson; Stephen P. Pereira; Matthew J. Clarkson; Dean C. Barratt (Int. J. Comput. Assist. Radiol. Surg., 2018)

Automatic segmentation of stereoelectroencephalography (SEEG) electrodes post-implantation considering bending. - Alejandro Granados; Vejay Vakharia; Roman Rodionov; Martin Schweiger; Sjoerd B. Vos; Aidan G. O'Keeffe; Kuo Li; Chengyuan Wu; Anna Miserocchi; Andrew W. McEvoy; Matthew J. Clarkson; John S. Duncan; et al. (Int. J. Comput. Assist. Radiol. Surg., 2018)

A pre-operative planning framework for global registration of laparoscopic ultrasound to CT images. - João Ramalhinho; Maria R. Robu; Stephen A. Thompson; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Dean C. Barratt; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2018)

Global rigid registration of CT to video in laparoscopic liver surgery. - Maria R. Robu; João Ramalhinho; Stephen A. Thompson; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Danail Stoyanov; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2018)

In vivo estimation of target registration errors during augmented reality laparoscopic surgery. - Stephen A. Thompson; Crispin Schneider; Michele Bosi; Kurinchi Gurusamy; Sébastien Ourselin; Brian R. Davidson; David J. Hawkes; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2018)

Automatic Multi-Organ Segmentation on Abdominal CT With Dense V-Networks. - Eli Gibson; Francesco Giganti; Yipeng Hu; Ester Bonmati; Steve Bandula; Kurinchi Gurusamy; Brian R. Davidson; Stephen P. Pereira; Matthew J. Clarkson; Dean C. Barratt (IEEE Trans. Medical Imaging, 2018)

More Unlabelled Data or Label More Data? A Study on Semi-supervised Laparoscopic Image Segmentation. - Yunguan Fu; Maria R. Robu; Bongjin Koo; Crispin Schneider; Stijn van Laarhoven; Danail Stoyanov; Brian R. Davidson; Matthew J. Clarkson; Yipeng Hu (DART/MIL3ID@MICCAI, 2019)

Generating Large Labeled Data Sets for Laparoscopic Image Processing Tasks Using Unpaired Image-to-Image Translation. - Micha Pfeiffer; Isabel Funke; Maria R. Robu; Sebastian Bodenstedt; Leon Strenger; Sandy Engelhardt; Tobias Roß; Matthew J. Clarkson; Kurinchi Gurusamy; Brian R. Davidson; Lena Maier-Hein; Carina Riediger; et al. (MICCAI (5), 2019)

Registration of Untracked 2D Laparoscopic Ultrasound Liver Images to CT Using Content-Based Retrieval and Kinematic Priors. - João Ramalhinho; Henry F. J. Tregidgo; Moustafa Allam; Nikolina Travlou; Kurinchi Gurusamy; Brian R. Davidson; David J. Hawkes; Dean C. Barratt; Matthew J. Clarkson (SUSI/PIPPI@MICCAI, 2019)

Multi-Task Recurrent Neural Network for Surgical Gesture Recognition and Progress Prediction. - Beatrice van Amsterdam; Matthew J. Clarkson; Danail Stoyanov (ICRA, 2020)

Intraoperative Liver Surface Completion with Graph Convolutional VAE. - Simone Foti; Bongjin Koo; Thomas Dowrick; João Ramalhinho; Moustafa Allam; Brian R. Davidson; Danail Stoyanov; Matthew J. Clarkson (UNSURE/GRAIL@MICCAI, 2020)

Learning from irregularly sampled data for endomicroscopy super-resolution: a comparative study of sparse and dense approaches. - Agnieszka Barbara Szczotka; Dzhoshkun Ismail Shakir; Daniele Ravì; Matthew J. Clarkson; Stephen P. Pereira; Tom Vercauteren (Int. J. Comput. Assist. Radiol. Surg., 2020)

SciKit-Surgery: compact libraries for surgical navigation. - Stephen A. Thompson; Thomas Dowrick; Mian Ahmad; Goufang Xiao; Bongjin Koo; Ester Bonmati; Kim Kahl; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2020)

Impact of total variation minimization in volume rendering visualization of breast tomosynthesis data. - Ana M. Mota; Matthew J. Clarkson; Pedro Almeida 001; Luis Peralta; Nuno Matela (Comput. Methods Programs Biomed., 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)

Dimensions of ecological validity for usability evaluations in clinical settings. - Niels van Berkel; Matthew J. Clarkson; Guofang Xiao; Eren Dursun; Moustafa Allam; Brian R. Davidson; Ann Blandford (J. Biomed. Informatics, 2020)

Optimization of Breast Tomosynthesis Visualization through 3D Volume Rendering. - Ana M. Mota; Matthew J. Clarkson; Pedro Almeida 001; Nuno Matela (J. Imaging, 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)

An Enhanced Visualization of DBT Imaging Using Blind Deconvolution and Total Variation Minimization Regularization. - Ana M. Mota; Matthew J. Clarkson; Pedro Almeida 001; Nuno Matela (IEEE Trans. Medical Imaging, 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)

Morphological Change Forecasting For Prostate Glands Using Feature-Based Registration And Kernel Density Extrapolation. - Qianye Yang; Tom Vercauteren; Yunguan Fu; Francesco Giganti; Nooshin Ghavami; Vasilis Stavrinides; Caroline M. Moore; Matthew J. Clarkson; Dean C. Barratt; Yipeng Hu (ISBI, 2021)

Endoscopic Ultrasound Image Synthesis Using a Cycle-Consistent Adversarial Network. - Alexander Grimwood; João Ramalhinho; Zachary M. C. Baum; Nina Montaña Brown; Gavin J. Johnson; Yipeng Hu; Matthew J. Clarkson; Stephen P. Pereira; Dean C. Barratt; Ester Bonmati (ASMUS@MICCAI, 2021)

Are fiducial registration error and target registration error correlated? SciKit-SurgeryFRED for teaching and research. - Stephen A. Thompson; Thomas Dowrick; Mian Ahmad; Jeremy Opie; Matthew J. Clarkson (Image-Guided Procedures, 2021)

Vessel segmentation for automatic registration of untracked laparoscopic ultrasound to CT of the liver. - Nina Montaña Brown; João Ramalhinho; Moustafa Allam; Brian R. Davidson; Yipeng Hu; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2021)

Integrated multi-modality image-guided navigation for neurosurgery: open-source software platform using state-of-the-art clinical hardware. - Jonathan Shapey; Thomas Dowrick; Rémi Delaunay; Eleanor C. Mackle; Stephen A. Thompson; Mirek Janatka; Roland Guichard; Anastasis Georgoulas; David Pérez-Suárez; Robert Bradford; Shakeel R. Saeed; Sébastien Ourselin; et al. (Int. J. Comput. Assist. Radiol. Surg., 2021)

Voice-assisted Image Labelling for Endoscopic Ultrasound Classification using Neural Networks. - Ester Bonmati; Yipeng Hu; Alexander Grimwood; Gavin J. Johnson; George Goodchild; Margaret G. Keane; Kurinchi Gurusamy; Brian R. Davidson; Matthew J. Clarkson; Stephen P. Pereira; Dean C. Barratt (CoRR, 2021)

Machine Learning for Localizing Epileptogenic-Zone in the Temporal Lobe: Quantifying the Value of Multimodal Clinical-Semiology and Imaging Concordance. - Ali Alim-Marvasti; Fernando Pérez-García; Karan Dahele; Gloria Romagnoli; Beate Diehl; Rachel Sparks; Sébastien Ourselin; Matthew J. Clarkson; John S. Duncan (Frontiers Digit. Health, 2021)

Gesture Recognition in Robotic Surgery: A Review. - Beatrice van Amsterdam; Matthew J. Clarkson; Danail Stoyanov (IEEE Trans. Biomed. Eng., 2021)

Registration of Untracked 2D Laparoscopic Ultrasound to CT Images of the Liver Using Multi-Labelled Content-Based Image Retrieval. - João Ramalhinho; Henry F. J. Tregidgo; Kurinchi Gurusamy; David J. Hawkes; Brian R. Davidson; Matthew J. Clarkson (IEEE Trans. Medical Imaging, 2021)

Zero-Shot Super-Resolution With a Physically-Motivated Downsampling Kernel for Endomicroscopy. - Agnieszka Barbara Szczotka; Dzhoshkun Ismail Shakir; Matthew J. Clarkson; Stephen P. Pereira; Tom Vercauteren (IEEE Trans. Medical Imaging, 2021)

Detection of Microcalcifications in Digital Breast Tomosynthesis using Faster R-CNN and 3D Volume Rendering. - Ana M. Mota; Matthew J. Clarkson; Pedro Almeida 001; Nuno Matela (BIOIMAGING, 2022)

3D Shape Variational Autoencoder Latent Disentanglement via Mini-Batch Feature Swapping for Bodies and Faces. - Simone Foti; Bongjin Koo; Danail Stoyanov; Matthew J. Clarkson (CVPR, 2022)

Towards Multi-modal Self-supervised Video and Ultrasound Pose Estimation for Laparoscopic Liver Surgery. - Nina Montaña Brown; João Ramalhinho; Bongjin Koo; Moustafa Allam; Brian R. Davidson; Kurinchi Gurusamy; Yipeng Hu; Matthew J. Clarkson (ASMUS@MICCAI, 2022)

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)

SciKit-SurgeryGlenoid, an open source toolkit for glenoid version measurement. - Asta Olafsdottir; David Butt; Addie Majed; Mark Falworth; Matthew J. Clarkson; Stephen A. Thompson (Image-Guided Procedures, 2022)

Large scale simulation of labeled intraoperative scenes in unity. - Thomas Dowrick; Brian R. Davidson; Kurinchi Gurusamy; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2022)

Automatic, global registration in laparoscopic liver surgery. - Bongjin Koo; Maria R. Robu; Moustafa Allam; Micha Pfeiffer; Stephen A. Thompson; Kurinchi Gurusamy; Brian R. Davidson; Stefanie Speidel; David J. Hawkes; Danail Stoyanov; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 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)

Automatic Classification of Simulated Breast Tomosynthesis Whole Images for the Presence of Microcalcification Clusters Using Deep CNNs. - Ana M. Mota; Matthew J. Clarkson; Pedro Almeida 001; Nuno Matela (J. Imaging, 2022)

Utility of optical see-through head mounted displays in augmented reality-assisted surgery: A systematic review. - Manuel Birlo; P. J. Eddie Edwards; Matthew J. Clarkson; Danail Stoyanov (Medical Image Anal., 2022)

Gesture Recognition in Robotic Surgery With Multimodal Attention. - Beatrice van Amsterdam; Isabel Funke; Eddie Edwards; Stefanie Speidel; Justin Collins; Ashwin Sridhar; John D. Kelly; Matthew J. Clarkson; Danail Stoyanov (IEEE Trans. Medical Imaging, 2022)

Voice-Assisted Image Labeling for Endoscopic Ultrasound Classification Using Neural Networks. - Ester Bonmati; Yipeng Hu; Alexander Grimwood; Gavin J. Johnson; George Goodchild; Margaret G. Keane; Kurinchi Gurusamy; Brian R. Davidson; Matthew J. Clarkson; Stephen P. Pereira; Dean C. Barratt (IEEE Trans. Medical Imaging, 2022)

Cross-Modality Image Registration Using a Training-Time Privileged Third Modality. - Qianye Yang; David Atkinson; Yunguan Fu; Tom Syer; Wen Yan; Shonit Punwani; Matthew J. Clarkson; Dean C. Barratt; Tom Vercauteren; Yipeng Hu (IEEE Trans. Medical Imaging, 2022)

Software tool for visualization of a probabilistic map of the epileptogenic zone from seizure semiologies. - Fernando Pérez-García; Ali Alim-Marvasti; Gloria Romagnoli; Matthew J. Clarkson; Rachel Sparks; John S. Duncan; Sébastien Ourselin (Frontiers Neuroinformatics, 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)

Freehand ultrasound without external trackers. - Qi Li 030; Ziyi Shen; Qian Li 036; Dean C. Barratt; Thomas Dowrick; Matthew J. Clarkson; Tom Vercauteren; Yipeng Hu (Zenodo, 2022)

Trackerless Freehand Ultrasound with Sequence Modelling and Auxiliary Transformation Over Past and Future Frames. - Qi Li 030; Ziyi Shen; Qian Li 036; Dean C. Barratt; Thomas Dowrick; Matthew J. Clarkson; Tom Vercauteren; Yipeng Hu (ISBI, 2023)

Procedurally Generated Colonoscopy and Laparoscopy Data for Improved Model Training Performance. - Thomas Dowrick; Long Chen; João Ramalhinho; Juana González-Bueno Puyal; Matthew J. Clarkson (DEMI@MICCAI, 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)

Privileged Anatomical and Protocol Discrimination in Trackerless 3D Ultrasound Reconstruction. - Qi Li 030; Ziyi Shen; Qian Li 036; Dean C. Barratt; Thomas Dowrick; Matthew J. Clarkson; Tom Vercauteren; Yipeng Hu (ASMUS@MICCAI, 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)

The effect of luminance on depth perception in augmented reality guided laparoscopic surgery. - Athena Reissis; Soojeong Yoo; Matthew J. Clarkson; Stephen A. Thompson (Image-Guided Procedures, 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)

Enhanced Surgeons: Understanding the Design of Augmented Reality Instructions for Keyhole Surgery. - Christoph Davis; Soojeong Yoo; Matthew J. Clarkson; Stephen A. Thompson (VR Workshops, 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)

CAL-Tutor: A HoloLens 2 Application for Training in Obstetric Sonography and User Motion Data Recording. - Manuel Birlo; Philip Eddie Edwards; Soojeong Yoo; Brian Dromey; Francisco Vasconcelos 001; Matthew J. Clarkson; Danail Stoyanov (J. Imaging, 2023)

3D Generative Model Latent Disentanglement via Local Eigenprojection. - Simone Foti; Bongjin Koo; Danail Stoyanov; Matthew J. Clarkson (Comput. Graph. Forum, 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)

The value of Augmented Reality in surgery - A usability study on laparoscopic liver surgery. - João Ramalhinho; Soojeong Yoo; Thomas Dowrick; Bongjin Koo; Murali Somasundaram; Kurinchi Gurusamy; David J. Hawkes; Brian R. Davidson; Ann Blandford; Matthew J. Clarkson (Medical Image Anal., 2023)

DARES: Depth Anything in Robotic Endoscopic Surgery with Self-supervised Vector-LoRA of the Foundation Model. - Mona Sheikh Zeinoddin; Chiara Lena; Jiongqi Qu; Luca Carlini; Mattia Magro; Seunghoi Kim; Elena De Momi; Sophia Bano; Matthew Grech-Sollars; Evangelos B. Mazomenos; Daniel C. Alexander; Danail Stoyanov; et al. (ECCV Workshops (11), 2024)

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)

HUP-3D: A 3D Multi-view Synthetic Dataset for Assisted-Egocentric Hand-Ultrasound-Probe Pose Estimation. - Manuel Birlo; Razvan Caramalau; Philip J. Edwards; Brian Dromey; Matthew J. Clarkson; Danail Stoyanov (MICCAI (1), 2024)

PitVQA: Image-Grounded Text Embedding LLM for Visual Question Answering in Pituitary Surgery. - Runlong He; Mengya Xu; Adrito Das; Danyal Z. Khan; Sophia Bano; Hani J. Marcus; Danail Stoyanov; Matthew J. Clarkson; Mobarakol Islam (MICCAI (6), 2024)

Nonrigid Reconstruction of Freehand Ultrasound Without a Tracker. - Qi Li 030; Ziyi Shen; Qianye Yang; Dean C. Barratt; Matthew J. Clarkson; Tom Vercauteren; Yipeng Hu (MICCAI (4), 2024)

Can engineers represent surgeons in usability studies? Comparison of results from evaluating augmented reality guidance for laparoscopic surgery. - Soojeong Yoo; João Ramalhinho; Thomas Dowrick; Murali Somasundaram; Kurinchi Gurusamy; Brian R. Davidson; Matthew J. Clarkson; Ann Blandford (Comput. Graph., 2024)

Latent disentanglement in mesh variational autoencoders improves the diagnosis of craniofacial syndromes and aids surgical planning. - Simone Foti; Alexander J. Rickart; Bongjin Koo; Eimear O' Sullivan; Lara S. van de Lande; Athanasios Papaioannou; Roman Khonsari; Danail Stoyanov; N. U. Owase Jeelani; Silvia Schievano; David J. Dunaway; Matthew J. Clarkson (Comput. Methods Programs Biomed., 2024)

An objective comparison of methods for augmented reality in laparoscopic liver resection by preoperative-to-intraoperative image fusion. - Sharib Ali; Yamid Espinel; Yueming Jin; Peng Liu 074; Bianca Güttner; Xukun Zhang; Lihua Zhang; Thomas Dowrick; Matthew J. Clarkson; Shiting Xiao; Yifan Wu; Yijun Yang; et al. (CoRR, 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)

Illumination Histogram Consistency Metric for Quantitative Assessment of Video Sequences. - Long Chen; Mobarakol Islam; Matthew J. Clarkson; Thomas Dowrick (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)

HUP-3D: A 3D multi-view synthetic dataset for assisted-egocentric hand-ultrasound pose estimation. - Manuel Birlo; Razvan Caramalau; Philip J. Edwards; Brian Dromey; Matthew J. Clarkson; Danail Stoyanov (CoRR, 2024)

Automated Surgical Skill Assessment in Endoscopic Pituitary Surgery using Real-time Instrument Tracking on a High-fidelity Bench-top Phantom. - Adrito Das; Bilal Sidiqi; Laurent Mennillo; Zhehua Mao; Mikael Brudfors; Miguel Xochicale; Danyal Z. Khan; Nicola Newall; John G. Hanrahan; Matthew J. Clarkson; Danail Stoyanov; Hani J. Marcus; et al. (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)

Long-Term Dependency for 3D Reconstruction of Freehand Ultrasound Without External Tracker. - Qi Li 030; Ziyi Shen; Qian Li 036; Dean C. Barratt; Thomas Dowrick; Matthew J. Clarkson; Tom Vercauteren; Yipeng Hu (IEEE Trans. Biomed. Eng., 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)

PitSurgRT: real-time localization of critical anatomical structures in endoscopic pituitary surgery. - Zhehua Mao; Adrito Das; Mobarakol Islam; Danyal Z. Khan; Simon C. Williams; John G. Hanrahan; Anouk Borg; Neil L. Dorward; Matthew J. Clarkson; Danail Stoyanov; Hani J. Marcus; Sophia Bano (Int. J. Comput. Assist. Radiol. Surg., 2024)

Surgical-DeSAM: decoupling SAM for instrument segmentation in robotic surgery. - Yuyang Sheng; Sophia Bano; Matthew J. Clarkson; Mobarakol Islam (Int. J. Comput. Assist. Radiol. Surg., 2024)

An objective comparison of methods for augmented reality in laparoscopic liver resection by preoperative-to-intraoperative image fusion from the MICCAI2022 challenge. - Sharib Ali; Yamid Espinel; Yueming Jin; Peng Liu 074; Bianca Güttner; Xukun Zhang; Lihua Zhang; Thomas Dowrick; Matthew J. Clarkson; Shiting Xiao; Yifan Wu; Yijun Yang; et al. (Medical Image Anal., 2025)

Controllable illumination invariant GAN for diverse temporally-consistent surgical video synthesis. - Long Chen; Mobarak I. Hoque; Zhe Min; Matthew J. Clarkson; Thomas Dowrick (Medical Image Anal., 2025)

PitVQA++: Vector Matrix-Low-Rank Adaptation for Open-Ended Visual Question Answering in Pituitary Surgery. - Runlong He; Danyal Z. Khan; Evangelos B. Mazomenos; Hani J. Marcus; Danail Stoyanov; Matthew J. Clarkson; Mobarakol Islam (CoRR, 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)

Endo-FASt3r: Endoscopic Foundation model Adaptation for Structure from motion. - Mona Sheikh Zeinoddin; Mobarakol Islam; Zafer Tandogdu; Greg Shaw; Matthew J. Clarkson; Evangelos B. Mazomenos; Danail Stoyanov (CoRR, 2025)

SurgicalVLM-Agent: Towards an Interactive AI Co-Pilot for Pituitary Surgery. - Jiayuan Huang; Runlong He; Danyal Z. Khan; Evangelos B. Mazomenos; Danail Stoyanov; Hani J. Marcus; Matthew J. Clarkson; Mobarakol Islam (CoRR, 2025)

Augmented reality system for endoscopic pituitary surgery with automatic registration. - Aure Enkaoua; João Ramalhinho; Mobarakol Islam; Hani J. Marcus; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2025)

3D reconstruction in endonasal pituitary surgery. - Dannielle Lee; Laurent Mennillo; Emalee Burrows; Jia-En Chen; Danyal Z. Khan; Joachim Starup-Hansen; Danail Stoyanov; Matthew J. Clarkson; Hani J. Marcus; Sophia Bano (Int. J. Comput. Assist. Radiol. Surg., 2025)

SwinCVS: a unified approach to classifying critical view of safety structures in laparoscopic cholecystectomy. - Franciszek M. Nowak; Evangelos B. Mazomenos; Brian R. Davidson; Matthew J. Clarkson (Int. J. Comput. Assist. Radiol. Surg., 2025)

CineMA: A Foundation Model for Cine Cardiac MRI. - Yunguan Fu; Weixi Yi; Charlotte Manisty; Anish N. Bhuva; Thomas A. Treibel; James C. Moon; Matthew J. Clarkson; Rhodri H. Davies; 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)

Deep hashing for global registration of preoperative CT and video images for laparoscopic liver surgery. - Hanyuan Zhang; Sandun Bulathsinhala; Brian R. Davidson; Matthew J. Clarkson; João Ramalhinho (Int. J. Comput. Assist. Radiol. Surg., 2025)