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)

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

X-ray Mammography - MRI Registration Using a Volume-Preserving Affine Transformation and an EM-MRF for Breast Tissue Classification. - Thomy Mertzanidou; John H. Hipwell; Manuel Jorge Cardoso; Christine Tanner; Sébastien Ourselin; David J. Hawkes (Digital Mammography / IWDM, 2010)

Improved Neuronavigation through Integration of Intraoperative Anatomical and Diffusion Images in an Interventional MRI Suite. - Pankaj Daga; Gavin Winston; Marc Modat; Manuel Jorge Cardoso; Mark White 001; Laura Mancini; Andrew W. McEvoy; John S. Thornton; Caroline Micallef; Tarek A. Yousry; David J. Hawkes; John S. Duncan; et al. (IPCAI, 2011)

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)

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)

Integrating structural and diffusion MR information for optic radiation localisation in focal epilepsy patients. - Pankaj Daga; Gavin Winston; Marc Modat; Manuel Jorge Cardoso; Jason Stretton; Mark R. Symms; Andrew W. McEvoy; David J. Hawkes; John S. Duncan; 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)

Adaptive Neonate Brain Segmentation. - Manuel Jorge Cardoso; Andrew Melbourne; Giles S. Kendall; Marc Modat; Cornelia F. Hagmann; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (MICCAI (3), 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)

Log-Euclidean free-form deformation. - Marc Modat; Gerard R. Ridgway; Pankaj Daga; Manuel Jorge Cardoso; David J. Hawkes; John Ashburner; 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)

Classification of Alzheimer's disease patients and controls with Gaussian processes. - Jonathan Young; Marc Modat; Manuel Jorge Cardoso; John Ashburner; Sébastien Ourselin (ISBI, 2012)

Geodesic Information Flows. - Manuel Jorge Cardoso; Robin Wolz; Marc Modat; Nick C. Fox; Daniel Rueckert; Sébastien Ourselin (MICCAI (2), 2012)

Geodesic Shape-Based Averaging. - Manuel Jorge Cardoso; Gavin Winston; Marc Modat; Shiva Keihaninejad; John S. Duncan; Sébastien Ourselin (MICCAI (3), 2012)

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)

Radial Structure in the Preterm Cortex; Persistence of the Preterm Phenotype at Term Equivalent Age? - Andrew Melbourne; Giles S. Kendall; Manuel Jorge Cardoso; Roxanna Gunney; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (MICCAI (3), 2012)

Steady-State Model of the Radio-Pharmaceutical Uptake for MR-PET. - Stefano Pedemonte; Manuel Jorge Cardoso; Simon R. Arridge; Brian F. Hutton; Sébastien Ourselin (MICCAI (1), 2012)

Multi-STEPS: Multi-label similarity and truth estimation for propagated segmentations. - Manuel Jorge Cardoso; Marc Modat; Sébastien Ourselin; Shiva Keihaninejad; David M. Cash (MMBIA, 2012)

Parametric non-rigid registration using a stationary velocity field. - Marc Modat; Pankaj Daga; Manuel Jorge Cardoso; Sébastien Ourselin; Gerard R. Ridgway; John Ashburner (MMBIA, 2012)

Inverse-Consistent Symmetric Free Form Deformation. - Marc Modat; Manuel Jorge Cardoso; Pankaj Daga; David M. Cash; Nick C. Fox; Sébastien Ourselin (WBIR, 2012)

MRI to X-ray mammography registration using a volume-preserving affine transformation. - Thomy Mertzanidou; John H. Hipwell; Manuel Jorge Cardoso; Xiying Zhang; Christine Tanner; Sébastien Ourselin; Ulrich Bick; Henkjan J. Huisman; Nico Karssemeijer; David J. Hawkes (Medical Image Anal., 2012)

Accurate Localization of Optic Radiation During Neurosurgery in an Interventional MRI Suite. - Pankaj Daga; Gavin Winston; Marc Modat; Mark White 001; Laura Mancini; Manuel Jorge Cardoso; Mark R. Symms; Jason Stretton; Andrew W. McEvoy; John S. Thornton; Caroline Micallef; Tarek A. Yousry; et al. (IEEE Trans. Medical Imaging, 2012)

Multi-atlas Propagation Whole Heart Segmentation from MRI and CTA Using a Local Normalised Correlation Coefficient Criterion. - Maria A. Zuluaga; Manuel Jorge Cardoso; Marc Modat; Sébastien Ourselin (FIMH, 2013)

Attenuation Correction Synthesis for Hybrid PET-MR Scanners. - Ninon Burgos; Manuel Jorge Cardoso; Marc Modat; Stefano Pedemonte; John C. Dickson; Anna Barnes; John S. Duncan; David Atkinson; Simon R. Arridge; Brian F. Hutton; Sébastien Ourselin (MICCAI (1), 2013)

Measurement of Myelin in the Preterm Brain: Multi-compartment Diffusion Imaging and Multi-component T2 Relaxometry. - Andrew Melbourne; Zach Eaton-Rosen; Alan Bainbridge; Giles S. Kendall; Manuel Jorge Cardoso; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (MICCAI (2), 2013)

Quantitative Airway Analysis in Longitudinal Studies Using Groupwise Registration and 4D Optimal Surfaces. - Jens Petersen; Marc Modat; Manuel Jorge Cardoso; Asger Dirksen; Sébastien Ourselin; Marleen de Bruijne (MICCAI (2), 2013)

A Bayesian Approach for Spatially Adaptive Regularisation in Non-rigid Registration. - Ivor J. A. Simpson; Mark William Woolrich; Manuel Jorge Cardoso; David M. Cash; Marc Modat; Julia A. Schnabel; Sébastien Ourselin (MICCAI (2), 2013)

STEPS: Similarity and Truth Estimation for Propagated Segmentations and its application to hippocampal segmentation and brain parcelation. - Manuel Jorge Cardoso; Kelvin K. Leung; Marc Modat; Shiva Keihaninejad; David M. Cash; Josephine Barnes; Nick C. Fox; Sébastien Ourselin (Medical Image Anal., 2013)

AdaPT: An adaptive preterm segmentation algorithm for neonatal brain MRI. - Manuel Jorge Cardoso; Andrew Melbourne; Giles S. Kendall; Marc Modat; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (NeuroImage, 2013)

An unbiased longitudinal analysis framework for tracking white matter changes using diffusion tensor imaging with application to Alzheimer's disease. - Shiva Keihaninejad; Hui Zhang 005; Natalie S. Ryan; Ian B. Malone; Marc Modat; Manuel Jorge Cardoso; David M. Cash; Nick C. Fox; Sébastien Ourselin (NeuroImage, 2013)

Simulated Field Maps: Toward Improved Susceptibility Artefact Correction in Interventional MRI. - Martin Kochan; Pankaj Daga; Ninon Burgos; Mark White 001; Manuel Jorge Cardoso; Laura Mancini; Gavin Winston; Andrew W. McEvoy; John S. Thornton; Tarek A. Yousry; John S. Duncan; Danail Stoyanov; et al. (IPCAI, 2014)

Multi-atlas based pathological stratification of D-TGA congenital heart disease. - Maria A. Zuluaga; Alex F. Mendelson; Manuel Jorge Cardoso; Andrew Mayall Taylor; Sébastien Ourselin (ISBI, 2014)

Longitudinal Measurement of the Developing Thalamus in the Preterm Brain Using Multi-modal MRI. - Zach Eaton-Rosen; Andrew Melbourne; Eliza Orasanu; Marc Modat; Manuel Jorge Cardoso; Alan Bainbridge; Giles S. Kendall; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (MICCAI (2), 2014)

Multi-modal Measurement of the Myelin-to-Axon Diameter g-ratio in Preterm-born Neonates and Adult Controls. - Andrew Melbourne; Zach Eaton-Rosen; Enrico De Vita; Alan Bainbridge; Manuel Jorge Cardoso; David Price; Ernest Cady; Giles S. Kendall; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (MICCAI (2), 2014)

Simulating Neurodegeneration through Longitudinal Population Analysis of Structural and Diffusion Weighted MRI Data. - Marc Modat; Ivor J. A. Simpson; Manuel Jorge Cardoso; David M. Cash; Nicolas Toussaint; Nick C. Fox; Sébastien Ourselin (MICCAI (3), 2014)

Prefrontal Cortical Folding of the Preterm Brain: A Longitudinal Analysis of Preterm-Born Neonates. - Eliza Orasanu; Andrew Melbourne; Herve Lombaert; Manuel Jorge Cardoso; Stian Flage Johnsen; Giles S. Kendall; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (STIA, 2014)

A Modality-Agnostic Patch-Based Technique for Lesion Filling in Multiple Sclerosis. - Ferran Prados; Manual Jorge Cardoso; David G. MacManus; Claudia A. M. Wheeler-Kingshott; Sébastien Ourselin (MICCAI (2), 2014)

Bayesian Model Selection for Pathological Data. - Carole H. Sudre; Manuel Jorge Cardoso; Willem H. Bouvy; Geert Jan Biessels; Josephine Barnes; Sébastien Ourselin (MICCAI (1), 2014)

SEEG Trajectory Planning: Combining Stability, Structure and Scale in Vessel Extraction. - Maria A. Zuluaga; Roman Rodionov; Mark Nowell; Sufyan Achhala; Gergely Zombori; Manuel Jorge Cardoso; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (MICCAI (2), 2014)

Bilayered anatomically constrained split-and-merge expectation maximisation algorithm (BiASM) for brain segmentation. - Carole H. Sudre; Manuel Jorge Cardoso; Sébastien Ourselin (Image Processing, 2014)

An Oblique Approach to Prediction of Conversion to Alzheimer's Disease with Multikernel Gaussian Processes. - Jonathan Young; Marc Modat; Manuel Jorge Cardoso; John Ashburner; Sébastien Ourselin (MLINI@NIPS, 2014)

Preterm birth affects the developmental synergy between cortical folding and cortical connectivity observed on multimodal MRI. - Andrew Melbourne; Giles S. Kendall; Manuel Jorge Cardoso; Roxanna Gunney; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (NeuroImage, 2014)

Attenuation Correction Synthesis for Hybrid PET-MR Scanners: Application to Brain Studies. - Ninon Burgos; Manuel Jorge Cardoso; Kris Thielemans; Marc Modat; Stefano Pedemonte; John C. Dickson; Anna Barnes; Rebekah Ahmed; Colin J. Mahoney; Jonathan M. Schott; John S. Duncan; David Atkinson; et al. (IEEE Trans. Medical Imaging, 2014)

Improving MRI Brain Image Classification with Anatomical Regional Kernels. - Jonathan Young; Alex F. Mendelson; Manuel Jorge Cardoso; Marc Modat; John Ashburner; Sébastien Ourselin (MLMMI@ICML, 2015)

Template-Based Multimodal Joint Generative Model of Brain Data. - Manuel Jorge Cardoso; Carole H. Sudre; Marc Modat; Sébastien Ourselin (IPMI, 2015)

A Riemannian Framework for Intrinsic Comparison of Closed Genus-Zero Shapes. - Boris A. Gutman; P. Thomas Fletcher; Manuel Jorge Cardoso; Greg M. Fleishman; Marco Lorenzi; Paul M. Thompson; Sébastien Ourselin (IPMI, 2015)

Robust CT Synthesis for Radiotherapy Planning: Application to the Head and Neck Region. - Ninon Burgos; Manuel Jorge Cardoso; Filipa Guerreiro; Catarina Veiga; Marc Modat; Jamie McClelland; Antje-Christin Knopf; Shonit Punwani; David Atkinson; Simon R. Arridge; Brian F. Hutton; Sébastien Ourselin (MICCAI (2), 2015)

Subject-specific Models for the Analysis of Pathological FDG PET Data. - Ninon Burgos; Manuel Jorge Cardoso; Alex F. Mendelson; Jonathan M. Schott; David Atkinson; Simon R. Arridge; Brian F. Hutton; Sébastien Ourselin (MICCAI (2), 2015)

Scale Factor Point Spread Function Matching: Beyond Aliasing in Image Resampling. - Manuel Jorge Cardoso; Marc Modat; Tom Vercauteren; Sébastien Ourselin (MICCAI (2), 2015)

Grey Matter Sublayer Thickness Estimation in the Mouse Cerebellum. - Da Ma; Manuel Jorge Cardoso; Maria A. Zuluaga; Marc Modat; Nick M. Powell; Frances K. Wiseman; Victor L. J. Tybulewicz; Elizabeth M. C. Fisher; Mark F. Lythgoe; Sébastien Ourselin (MICCAI (3), 2015)

Measuring Cortical Neurite-Dispersion and Perfusion in Preterm-Born Adolescents Using Multi-modal MRI. - Andrew Melbourne; Zach Eaton-Rosen; David Owen 001; M. Jorge Cardoso; Joanne Beckmann; David Atkinson; Neil Marlow; Sébastien Ourselin (MICCAI (3), 2015)

Automatic assessment of volume asymmetries applied to hip abductor muscles in patients with hip arthroplasty. - Christian Klemt; Marc Modat; Jonas Pichat; Manuel Jorge Cardoso; Johann Henckel; Alister Hart; Sébastien Ourselin (Image Processing, 2015)

Simulated field maps for susceptibility artefact correction in interventional MRI. - Martin Kochan; Pankaj Daga; Ninon Burgos; Mark White 001; Manuel Jorge Cardoso; Laura Mancini; Gavin P. Winston; Andrew W. McEvoy; John S. Thornton; Tarek A. Yousry; John S. Duncan; Danail Stoyanov; et al. (Int. J. Comput. Assist. Radiol. Surg., 2015)

Stability, structure and scale: improvements in multi-modal vessel extraction for SEEG trajectory planning. - Maria A. Zuluaga; Roman Rodionov; Mark Nowell; Sufyan Achhala; Gergely Zombori; Alex F. Mendelson; Manuel Jorge Cardoso; Anna Miserocchi; Andrew W. McEvoy; John S. Duncan; Sébastien Ourselin (Int. J. Comput. Assist. Radiol. Surg., 2015)

Evaluation of automatic neonatal brain segmentation algorithms: The NeoBrainS12 challenge. - Ivana Isgum; Manon J. N. L. Benders; Brian B. Avants; Manuel Jorge Cardoso; Serena J. Counsell; Elda Fischi Gomez; Laura Gui; Petra S. Hüppi; Karina J. Kersbergen; Antonios Makropoulos; Andrew Melbourne; Pim Moeskops; et al. (Medical Image Anal., 2015)

Right ventricle segmentation from cardiac MRI: A collation study. - Caroline Petitjean; Maria A. Zuluaga; Wenjia Bai; Jean-Nicolas Dacher; Damien Grosgeorge; Jérôme Caudron; Su Ruan; Ismail Ben Ayed; Manuel Jorge Cardoso; Hsiang-Chou Chen; Daniel Jimenez-Carretero; María J. Ledesma-Carbayo; et al. (Medical Image Anal., 2015)

Probabilistic non-linear registration with spatially adaptive regularisation. - Ivor J. A. Simpson; Manuel Jorge Cardoso; Marc Modat; David M. Cash; Mark W. Woolrich; Jesper L. R. Andersson; Julia A. Schnabel; Sébastien Ourselin (Medical Image Anal., 2015)

Assessing atrophy measurement techniques in dementia: Results from the MIRIAD atrophy challenge. - David M. Cash; Chris Frost 001; Leonardo O. Iheme; Devrim Ünay; Melek Kandemir; Jurgen Fripp; Olivier Salvado; Pierrick Bourgeat; Martin Reuter 001; Bruce Fischl; Marco Lorenzi; Giovanni B. Frisoni; et al. (NeuroImage, 2015)

Longitudinal measurement of the developing grey matter in preterm subjects using multi-modal MRI. - Zach Eaton-Rosen; Andrew Melbourne; Eliza Orasanu; Manuel Jorge Cardoso; Marc Modat; Alan Bainbridge; Giles S. Kendall; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (NeuroImage, 2015)

In vivo imaging of tau pathology using multi-parametric quantitative MRI. - Jack A. Wells; James M. O'Callaghan; Holly E. Holmes; Nick M. Powell; Ross A. Johnson; Bernard Siow; F. Torrealdea; Ozama Ismail; Simon Walker-Samuel; Xavier Golay; M. Rega; Simon Richardson; et al. (NeuroImage, 2015)

Geodesic Information Flows: Spatially-Variant Graphs and Their Application to Segmentation and Fusion. - Manuel Jorge Cardoso; Marc Modat; Robin Wolz; Andrew Melbourne; David M. Cash; Daniel Rueckert; Sébastien Ourselin (IEEE Trans. Medical Imaging, 2015)

Bayesian Model Selection for Pathological Neuroimaging Data Applied to White Matter Lesion Segmentation. - Carole H. Sudre; Manuel Jorge Cardoso; Willem H. Bouvy; Geert Jan Biessels; Josephine Barnes; Sébastien Ourselin (IEEE Trans. Medical Imaging, 2015)

Joint Segmentation and CT Synthesis for MRI-only Radiotherapy Treatment Planning. - Ninon Burgos; Filipa Guerreiro; Jamie McClelland; Simeon Nill; David Dearnaley; Nandita deSouza; Uwe Oelfke; Antje-Christin Knopf; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (2), 2016)

Beyond the Resolution Limit: Diffusion Parameter Estimation in Partial Volume. - Zach Eaton-Rosen; Andrew Melbourne; M. Jorge Cardoso; Neil Marlow; Sébastien Ourselin (MICCAI (3), 2016)

Fully Automated Patch-Based Image Restoration: Application to Pathology Inpainting. - Ferran Prados; M. Jorge Cardoso; Niamh Cawley; Baris Kanber; Olga Ciccarelli; Claudia A. M. Wheeler-Kingshott; Sébastien Ourselin (BrainLes@MICCAI, 2016)

Fitting parametric models of diffusion MRI in regions of partial volume. - Zach Eaton-Rosen; Manuel Jorge Cardoso; Andrew Melbourne; Eliza Orasanu; Alan Bainbridge; Giles S. Kendall; Nicola J. Robertson; Neil Marlow; Sébastien Ourselin (Image Processing, 2016)

Editorial on Special Issue on Probabilistic Models for Biomedical Image Analysis. - Tal Arbel; Manuel Jorge Cardoso; William M. Wells III; Albert C. S. Chung; Doina Precup (Comput. Vis. Image Underst., 2016)

Variational inference for medical image segmentation. - Claudia Blaiotta; Manuel Jorge Cardoso; John Ashburner (Comput. Vis. Image Underst., 2016)

A multi-time-point modality-agnostic patch-based method for lesion filling in multiple sclerosis. - Ferran Prados; Manuel Jorge Cardoso; Baris Kanber; Olga Ciccarelli; Raju Kapoor; Claudia A. M. Wheeler-Kingshott; Sébastien Ourselin (NeuroImage, 2016)

On the Compactness, Efficiency, and Representation of 3D Convolutional Networks: Brain Parcellation as a Pretext Task. - Wenqi Li 001; Guotai Wang; Lucas Fidon; Sébastien Ourselin; M. Jorge Cardoso; Tom Vercauteren (IPMI, 2017)

VTrails: Inferring Vessels with Geodesic Connectivity Trees. - Stefano Moriconi; Maria A. Zuluaga; Hans Rolf Jäger; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (IPMI, 2017)

Individual Analysis of Molecular Brain Imaging Data Through Automatic Identification of Abnormality Patterns. - Ninon Burgos; Jorge Samper-González; Anne Bertrand; Marie Odile Habert; Sébastien Ourselin; Stanley Durrleman; M. Jorge Cardoso; Olivier Colliot (CMMI/RAMBO/SWITCH@MICCAI, 2017)

Joint Multimodal Segmentation of Clinical CT and MR from Hip Arthroplasty Patients. - Marta Bianca Maria Ranzini; Michael Ebner; M. Jorge Cardoso; Anastasia Fotiadou; Tom Vercauteren; Johann Henckel; Alister Hart; Sébastien Ourselin; Marc Modat (MSKI@MICCAI, 2017)

Short Acquisition Time PET Quantification Using MRI-Based Pharmacokinetic Parameter Synthesis. - Catherine J. Scott; Jieqing Jiao; M. Jorge Cardoso; Andrew Melbourne; Enrico De Vita; David Thomas 002; Ninon Burgos; Pawel Markiewicz; Jonathan M. Schott; Brian F. Hutton; Sébastien Ourselin (MICCAI (2), 2017)

Generalised Dice Overlap as a Deep Learning Loss Function for Highly Unbalanced Segmentations. - Carole H. Sudre; Wenqi Li 001; Tom Vercauteren; Sébastien Ourselin; M. Jorge Cardoso (DLMIA/ML-CDS@MICCAI, 2017)

Generative diffeomorphic atlas construction from brain and spinal cord MRI data. - Claudia Blaiotta; Patrick Freund; M. Jorge Cardoso; John Ashburner (CoRR, 2017)

NiftyNet: a deep-learning platform for medical imaging. - Eli Gibson; Wenqi Li 001; Carole H. Sudre; Lucas Fidon; Dzhoshkun I. Shakir; Guotai Wang; Zach Eaton-Rosen; Robert J. Gray; Tom Doel; Yipeng Hu; Tom Whyntie; Parashkev Nachev; et al. (CoRR, 2017)

Comparison of In Vivo and Ex Vivo MRI for the Detection of Structural Abnormalities in a Mouse Model of Tauopathy. - Holly E. Holmes; Nick M. Powell; Da Ma; Ozama Ismail; Ian F. Harrison; Jack A. Wells; Niall Colgan; James M. O'Callaghan; Ross A. Johnson; Tracey K. Murray; Zeshan Ahmed; Morten Heggenes; et al. (Frontiers Neuroinformatics, 2017)

Longitudinal segmentation of age-related white matter hyperintensities. - Carole H. Sudre; Manuel Jorge Cardoso; Sébastien Ourselin (Medical Image Anal., 2017)

Longitudinal multiple sclerosis lesion segmentation: Resource and challenge. - Aaron Carass; Snehashis Roy; Amod Jog; Jennifer L. Cuzzocreo; Elizabeth M. Sweeney; Adrian Gherman; Julia Button; James Nguyen; Ferran Prados; Carole H. Sudre; Manuel Jorge Cardoso; Niamh Cawley; et al. (NeuroImage, 2017)

A multi-centre evaluation of eleven clinically feasible brain PET/MRI attenuation correction techniques using a large cohort of patients. - Claes Nøhr Ladefoged; Ian Law; Udunna Anazodo; Keith St. Lawrence; David Izquierdo-Garcia; Ciprian Catana; Ninon Burgos; M. Jorge Cardoso; Sébastien Ourselin; Brian F. Hutton; Inés Mérida; Nicolas Costes 001; et al. (NeuroImage, 2017)

Spinal cord grey matter segmentation challenge. - Ferran Prados; John Ashburner; Claudia Blaiotta; Tom Brosch; Julio Carballido-Gamio; Manuel Jorge Cardoso; Benjamin N. Conrad; Esha Datta; Gergely Dávid; Benjamin De Leener; Sara M. Dupont; Patrick Freund; et al. (NeuroImage, 2017)

A Comparison of Accelerated and Non-accelerated MRI Scans for Brain Volume and Boundary Shift Integral Measures of Volume Change: Evidence from the ADNI Dataset. - Emily N. Manning; Kelvin K. Leung; Jennifer M. Nicholas; Ian B. Malone; M. Jorge Cardoso; Jonathan M. Schott; Nick C. Fox; Josephine Barnes (Neuroinformatics, 2017)

Uncertainty in Multitask Learning: Joint Representations for Probabilistic MR-only Radiotherapy Planning. - Felix J. S. Bragman; Ryutaro Tanno; Zach Eaton-Rosen; Wenqi Li 001; David J. Hawkes; Sébastien Ourselin; Daniel C. Alexander; Jamie R. McClelland; M. Jorge Cardoso (MICCAI (4), 2018)

Towards Safe Deep Learning: Accurately Quantifying Biomarker Uncertainty in Neural Network Predictions. - Zach Eaton-Rosen; Felix J. S. Bragman; Sotirios Bisdas; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (1), 2018)

Deep Boosted Regression for MR to CT Synthesis. - Kerstin Kläser 002; Pawel Markiewicz; Marta Bianca Maria Ranzini; Wenqi Li 001; Marc Modat; Brian F. Hutton; David Atkinson; Kris Thielemans; M. Jorge Cardoso; Sébastien Ourselin (SASHIMI@MICCAI, 2018)

Elastic Registration of Geodesic Vascular Graphs. - Stefano Moriconi; Maria A. Zuluaga; Hans Rolf Jäger; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (1), 2018)

Short Acquisition Time PET/MR Pharmacokinetic Modelling Using CNNs. - Catherine J. Scott; Jieqing Jiao; M. Jorge Cardoso; Kerstin Kläser 002; Andrew Melbourne; Pawel J. Markiewicz; Jonathan M. Schott; Brian F. Hutton; Sébastien Ourselin (MICCAI (1), 2018)

Thalamic Nuclei Segmentation Using Tractography, Population-Specific Priors and Local Fibre Orientation. - Carla Semedo; M. Jorge Cardoso; Sjoerd B. Vos; Carole H. Sudre; Martina Bocchetta; Annemie Ribbens; Dirk Smeets; Jonathan D. Rohrer; Sébastien Ourselin (MICCAI (3), 2018)

PIMMS: Permutation Invariant Multi-modal Segmentation. - Thomas Varsavsky; Zach Eaton-Rosen; Carole H. Sudre; Parashkev Nachev; M. Jorge Cardoso (DLMIA/ML-CDS@MICCAI, 2018)

Imaging biomarkers for the diagnosis of Prion disease. - Liane S. Canas; Benjamin C. Yvernault; Carole H. Sudre; Enrico De Vita; M. Jorge Cardoso; John S. Thornton; Frederik Barkhof; Sébastien Ourselin; Simon Mead; Marc Modat (Image Processing, 2018)

An Adaptive Sampling Scheme to Efficiently Train Fully Convolutional Networks for Semantic Segmentation. - Lorenz Berger; Eoin Hyde; M. Jorge Cardoso; Sébastien Ourselin (MIUA, 2018)

NiftyNet: a deep-learning platform for medical imaging. - Eli Gibson; Wenqi Li 001; Carole H. Sudre; Lucas Fidon; Dzhoshkun I. Shakir; Guotai Wang; Zach Eaton-Rosen; Robert J. Gray; Tom Doel; Yipeng Hu; Tom Whyntie; Parashkev Nachev; et al. (Comput. Methods Programs Biomed., 2018)

Robust training of recurrent neural networks to handle missing data for disease progression modeling. - Mostafa Mehdipour-Ghazi; Mads Nielsen; Akshay Pai; M. Jorge Cardoso; Marc Modat; Sébastien Ourselin; Lauge Sørensen (CoRR, 2018)

Simultaneous synthesis of FLAIR and segmentation of white matter hypointensities from T1 MRIs. - Mauricio Orbes-Arteaga; M. Jorge Cardoso; Lauge Sørensen; Marc Modat; Sébastien Ourselin; Mads Nielsen; Akshay Pai (CoRR, 2018)

3D multirater RCNN for multimodal multiclass detection and characterisation of extremely small objects. - Carole H. Sudre; Beatriz Gomez Anson; Silvia Ingala; Chris D. Lane; Daniel Jimenez; Lukas Haider; Thomas Varsavsky; Lorna Smith; Hans Rolf Jäger; M. Jorge Cardoso (CoRR, 2018)

Generative diffeomorphic modelling of large MRI data sets for probabilistic template construction. - Claudia Blaiotta; Patrick Freund; M. Jorge Cardoso; John Ashburner (NeuroImage, 2018)

Volumetric reconstruction from printed films: Enabling 30 year longitudinal analysis in MR neuroimaging. - Michael Ebner; Karen K. Chung; Ferran Prados; M. Jorge Cardoso; Declan T. Chard; Tom Vercauteren; Sébastien Ourselin (NeuroImage, 2018)

Stochastic Filter Groups for Multi-Task CNNs: Learning Specialist and Generalist Convolution Kernels. - Felix J. S. Bragman; Ryutaro Tanno; Sébastien Ourselin; Daniel C. Alexander; Manuel Jorge Cardoso (ICCV, 2019)

On the Initialization of Long Short-Term Memory Networks. - Mostafa Mehdipour-Ghazi; Mads Nielsen; Akshay Pai; Marc Modat; M. Jorge Cardoso; Sébastien Ourselin; Lauge Sørensen (ICONIP (1), 2019)

Physics-Informed Brain MRI Segmentation. - Pedro Borges; Carole H. Sudre; Thomas Varsavsky; David Thomas 002; Ivana Drobnjak; Sébastien Ourselin; M. Jorge Cardoso (SASHIMI@MICCAI, 2019)

Learning Task-Specific and Shared Representations in Medical Imaging. - Felix J. S. Bragman; Ryutaro Tanno; Sébastien Ourselin; Daniel C. Alexander; M. Jorge Cardoso (MICCAI (4), 2019)

As Easy as 1, 2...4? Uncertainty in Counting Tasks for Medical Imaging. - Zach Eaton-Rosen; Thomas Varsavsky; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (4), 2019)

Improved MR to CT Synthesis for PET/MR Attenuation Correction Using Imitation Learning. - Kerstin Kläser 002; Thomas Varsavsky; Pawel Markiewicz; Tom Vercauteren; David Atkinson; Kris Thielemans; Brian F. Hutton; M. Jorge Cardoso; Sébastien Ourselin (SASHIMI@MICCAI, 2019)

Privacy-Preserving Federated Brain Tumour Segmentation. - Wenqi Li 001; Fausto Milletarì; Daguang Xu; Nicola Rieke; Jonny Hancox; Wentao Zhu 001; Maximilian Baust; Yan Cheng; Sébastien Ourselin; M. Jorge Cardoso; Andrew Feng (MLMI@MICCAI, 2019)

Towards Quantifying Neurovascular Resilience. - Stefano Moriconi; Rafael Rehwald; Maria A. Zuluaga; Hans Rolf Jäger; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MLMECH/CVII-STENT@MICCAI, 2019)

Multi-domain Adaptation in Brain MRI Through Paired Consistency and Adversarial Learning. - Mauricio Orbes-Arteaga; Thomas Varsavsky; Carole H. Sudre; Zach Eaton-Rosen; Lewis J. Haddow; Lauge Sørensen; Mads Nielsen; Akshay Pai; Sébastien Ourselin; Marc Modat; Parashkev Nachev; M. Jorge Cardoso (DART/MIL3ID@MICCAI, 2019)

Knowledge Distillation for Semi-supervised Domain Adaptation. - Mauricio Orbes-Arteaga; M. Jorge Cardoso; Lauge Sørensen; Christian Igel; Sébastien Ourselin; Marc Modat; Mads Nielsen; Akshay Pai (OR/MLCN@MICCAI, 2019)

Let's Agree to Disagree: Learning Highly Debatable Multirater Labelling. - Carole H. Sudre; Beatriz Gomez Anson; Silvia Ingala; Chris D. Lane; Daniel Jimenez; Lukas Haider; Thomas Varsavsky; Ryutaro Tanno; Lorna Smith; Sébastien Ourselin; Hans Rolf Jäger; M. Jorge Cardoso (MICCAI (4), 2019)

MRI k-Space Motion Artefact Augmentation: Model Robustness and Task-Specific Uncertainty. - Richard Shaw; Carole H. Sudre; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2019)

3D multirater RCNN for multimodal multiclass detection and characterisation of extremely small objects. - Carole H. Sudre; Beatriz Gomez Anson; Silvia Ingala; Chris D. Lane; Daniel Jimenez; Lukas Haider; Thomas Varsavsky; Lorna Smith; Sébastien Ourselin; Hans Rolf Jäger; M. Jorge Cardoso (MIDL, 2019)

PADDIT: Probabilistic Augmentation of Data using Diffeomorphic Image Transformation. - Mauricio Orbes-Arteaga; Lauge Sørensen; Manuel Jorge Cardoso; Marc Modat; Sébastien Ourselin; Stefan Sommer; Mads Nielsen; Christian Igel; Akshay Pai (Image Processing, 2019)

Grey matter sublayer thickness estimation in themouse cerebellum. - Da Ma; Manuel Jorge Cardoso; Maria A. Zuluaga; Marc Modat; Nick M. Powell; Frances K. Wiseman; Victor L. J. Tybulewicz; Elizabeth M. C. Fisher; Mark F. Lythgoe; Sébastien Ourselin (CoRR, 2019)

A large annotated medical image dataset for the development and evaluation of segmentation algorithms. - Amber L. Simpson; Michela Antonelli; Spyridon Bakas; Michel Bilello; Keyvan Farahani; Bram van Ginneken; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens 001; Bjoern H. Menze; Olaf Ronneberger; Ronald M. Summers; et al. (CoRR, 2019)

Medical Imaging with Deep Learning: MIDL 2019 - Extended Abstract Track. - M. Jorge Cardoso; Aasa Feragen; Ben Glocker; Ender Konukoglu; Ipek Oguz; Gozde B. Unal; Tom Vercauteren (CoRR, 2019)

Methods and open-source toolkit for analyzing and visualizing challenge results. - Manuel Wiesenfarth; Annika Reinke; Bennett A. Landman; Manuel Jorge Cardoso; Lena Maier-Hein; Annette Kopp-Schneider (CoRR, 2019)

Machine learning and glioma imaging biomarkers. - Thomas C. Booth; Matthew Williams; Aysha Luis; Manuel Jorge Cardoso; Ashkan Keyoumars; Haris Shuaib (CoRR, 2019)

GAS: A genetic atlas selection strategy in multi-atlas segmentation framework. - Michela Antonelli; M. Jorge Cardoso; Edward W. Johnston; Mrishta Brizmohun Appayya; Benoît Presles; Marc Modat; Shonit Punwani; Sébastien Ourselin (Medical Image Anal., 2019)

Training recurrent neural networks robust to incomplete data: Application to Alzheimer's disease progression modeling. - Mostafa Mehdipour-Ghazi; Mads Nielsen; Akshay Pai; M. Jorge Cardoso; Marc Modat; Sébastien Ourselin; Lauge Sørensen (Medical Image Anal., 2019)

High-dimensional detection of imaging response to treatment in multiple sclerosis. - Baris Kanber; Parashkev Nachev; Frederik Barkhof; Alberto Calvi; Jorge Cardoso 002; Rosa Cortese; Ferran Prados; Carole H. Sudre; Carmen Tur; Sébastien Ourselin; Olga Ciccarelli (npj Digit. Medicine, 2019)

Author Correction: High-dimensional detection of imaging response to treatment in multiple sclerosis. - Baris Kanber; Parashkev Nachev; Frederik Barkhof; Alberto Calvi; Jorge Cardoso 002; Rosa Cortese; Ferran Prados; Carole H. Sudre; Carmen Tur; Sébastien Ourselin; Olga Ciccarelli (npj Digit. Medicine, 2019)

Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge. - Hugo J. Kuijf; Adrià Casamitjana; D. Louis Collins; Mahsa Dadar; Achilleas Georgiou; Mohsen Ghafoorian; Dakai Jin; April Khademi; Jesse Knight; Hongwei Li 004; Xavier Lladó; J. Matthijs Biesbroek; et al. (IEEE Trans. Medical Imaging, 2019)

Inference of Cerebrovascular Topology With Geodesic Minimum Spanning Trees. - Stefano Moriconi; Maria A. Zuluaga; Hans Rolf Jäger; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (IEEE Trans. Medical Imaging, 2019)

Combining Multimodal Information for Metal Artefact Reduction: An Unsupervised Deep Learning Framework. - Marta Bianca Maria Ranzini; Irme Groothuis; Kerstin Kläser 002; M. Jorge Cardoso; Johann Henckel; Sébastien Ourselin; Alister Hart; Marc Modat (ISBI, 2020)

Hierarchical Brain Parcellation with Uncertainty. - Mark S. Graham; Carole H. Sudre; Thomas Varsavsky; Petru-Daniel Tudosiu; Parashkev Nachev; Sébastien Ourselin; Manuel Jorge Cardoso (UNSURE/GRAIL@MICCAI, 2020)

Uncertainty-Aware Multi-resolution Whole-Body MR to CT Synthesis. - Kerstin Kläser 002; Pedro Borges; Richard Shaw; Marta Ranzini; Marc Modat; David Atkinson; Kris Thielemans; Brian F. Hutton; Vicky Goh; Gary J. Cook; M. Jorge Cardoso; Sébastien Ourselin (SASHIMI@MICCAI, 2020)

Test-Time Unsupervised Domain Adaptation. - Thomas Varsavsky; Mauricio Orbes-Arteaga; Carole H. Sudre; Mark S. Graham; Parashkev Nachev; M. Jorge Cardoso (MICCAI (1), 2020)

A Heteroscedastic Uncertainty Model for Decoupling Sources of MRI Image Quality. - Richard Shaw; Carole H. Sudre; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2020)

Learned optical flow for intra-operative tracking of the retinal fundus. - Claudio S. Ravasio; Theodoros Pissas; Edward Bloch; Blanca Flores; Sepehr Jalali; Danail Stoyanov; M. Jorge Cardoso; Lyndon Da Cruz; Christos Bergeles (Int. J. Comput. Assist. Radiol. Surg., 2020)

Automated postoperative muscle assessment of hip arthroplasty patients using multimodal imaging joint segmentation. - Marta Bianca Maria Ranzini; Johann Henckel; Michael Ebner; M. Jorge Cardoso; Amanda Isaac; Tom Vercauteren; Sébastien Ourselin; Alister Hart; Marc Modat (Comput. Methods Programs Biomed., 2020)

Neuromorphologicaly-preserving Volumetric data encoding using VQ-VAE. - Petru-Daniel Tudosiu; Thomas Varsavsky; Richard Shaw; Mark S. Graham; Parashkev Nachev; Sébastien Ourselin; Carole H. Sudre; M. Jorge Cardoso (CoRR, 2020)

Automatic Right Ventricle Segmentation using Multi-Label Fusion in Cardiac MRI. - Maria A. Zuluaga; M. Jorge Cardoso; Sébastien Ourselin (CoRR, 2020)

Biomechanical modelling of brain atrophy through deep learning. - Mariana da Silva; Kara Garcia; Carole H. Sudre; Cher Bass; M. Jorge Cardoso; Emma C. Robinson (CoRR, 2020)

Machine learning assisted DSC-MRI radiomics as a tool for glioma classification by grade and mutation status. - Carole H. Sudre; Jasmina Panovska; Eser Sanverdi; Sebastian Brandner; Vasileios K. Katsaros; George Stranjalis; Francesca B. Pizzini; Claudio Ghimenton; Katarina Surlan-Popovic; Jernej Avsenik; Maria Vittoria Spampinato; Mario Nigro; et al. (BMC Medical Informatics Decis. Mak., 2020)

Substantially thinner internal granular layer and reduced molecular layer surface in the cerebellar cortex of the Tc1 mouse model of down syndrome - a comprehensive morphometric analysis with active staining contrast-enhanced MRI. - Da Ma; Manuel Jorge Cardoso; Maria A. Zuluaga; Marc Modat; Nick M. Powell; Frances K. Wiseman; Jon O. Cleary; Benjamin Sinclair; Ian F. Harrison; Bernard Siow; Karteek Popuri; Sieun Lee; et al. (NeuroImage, 2020)

Generalised boundary shift integral for longitudinal assessment of spinal cord atrophy. - Ferran Prados; Marcello Moccia; Aubrey Johnson; Marios C. Yiannakas; Francesco Grussu; Manuel Jorge Cardoso; Olga Ciccarelli; Sébastien Ourselin; Frederik Barkhof; Claudia A. M. Wheeler-Kingshott (NeuroImage, 2020)

Automated White Matter Hyperintensity Segmentation Using Bayesian Model Selection: Assessment and Correlations with Cognitive Change. - Cassidy M. Fiford; Carole H. Sudre; Hugh Pemberton; Phoebe Walsh; Emily N. Manning; Ian B. Malone; Jennifer Nicholas; Willem H. Bouvy; Owen T. Carmichael; Geert Jan Biessels; M. Jorge Cardoso; Josephine Barnes (Neuroinformatics, 2020)

Neurosense: deep sensing of full or near-full coverage head/brain scans in human magnetic resonance imaging. - Baris Kanber; James K. Ruffle; M. Jorge Cardoso; Sébastien Ourselin; Olga Ciccarelli (Neuroinformatics, 2020)

The future of digital health with federated learning. - Nicola Rieke; Jonny Hancox; Wenqi Li 001; Fausto Milletarì; Holger R. Roth; Shadi Albarqouni; Spyridon Bakas; Mathieu N. Galtier; Bennett A. Landman; Klaus H. Maier-Hein; Sébastien Ourselin; Micah J. Sheller; et al. (npj Digit. Medicine, 2020)

A k-Space Model of Movement Artefacts: Application to Segmentation Augmentation and Artefact Removal. - Richard Shaw; Carole H. Sudre; Thomas Varsavsky; Sébastien Ourselin; M. Jorge Cardoso (IEEE Trans. Medical Imaging, 2020)

The Role of MRI Physics in Brain Segmentation CNNs: Achieving Acquisition Invariance and Instructive Uncertainties. - Pedro Borges; Richard Shaw; Thomas Varsavsky; Kerstin Kläser 002; David Thomas 002; Ivana Drobnjak; Sébastien Ourselin; Manuel Jorge Cardoso (SASHIMI@MICCAI, 2021)

Distinguishing Healthy Ageing from Dementia: A Biomechanical Simulation of Brain Atrophy Using Deep Networks. - Mariana da Silva; Carole H. Sudre; Kara Garcia; Cher Bass; M. Jorge Cardoso; Emma C. Robinson (MLCN@MICCAI, 2021)

An MRF-UNet Product of Experts for Image Segmentation. - Mikael Brudfors; Yaël Balbastre; John Ashburner; Geraint Rees 001; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2021)

Unsupervised Brain Anomaly Detection and Segmentation with Transformers. - Walter Hugo Lopez Pinaya; Petru-Daniel Tudosiu; Robert J. Gray; Geraint Rees 001; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2021)

Lesion-wise evaluation for effective performance monitoring of small object segmentation. - Irme Groothuis; Carole H. Sudre; Silvia Ingala; Josephine Barnes; Juan Domingo Gispert; Lauge Sørensen; Akshay Pai; Mads Nielsen; Sébastien Ourselin; M. Jorge Cardoso; Frederik Barkhof; Marc Modat (Image Processing, 2021)

Common Limitations of Image Processing Metrics: A Picture Story. - Annika Reinke; Matthias Eisenmann; Minu Dietlinde Tizabi; Carole H. Sudre; Tim Rädsch; Michela Antonelli; Tal Arbel; Spyridon Bakas; M. Jorge Cardoso; Veronika Cheplygina; Keyvan Farahani; Ben Glocker; et al. (CoRR, 2021)

The Medical Segmentation Decathlon. - Michela Antonelli; Annika Reinke; Spyridon Bakas; Keyvan Farahani; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens 001; Bjoern H. Menze; Olaf Ronneberger; Ronald M. Summers; Bram van Ginneken; Michel Bilello; et al. (CoRR, 2021)

Estimating MRI Image Quality via Image Reconstruction Uncertainty. - Richard Shaw; Carole H. Sudre; Sébastien Ourselin; M. Jorge Cardoso (CoRR, 2021)

A Decoupled Uncertainty Model for MRI Segmentation Quality Estimation. - Richard Shaw; Carole H. Sudre; Sébastien Ourselin; M. Jorge Cardoso; Hugh G. Pemberton (CoRR, 2021)

Learning joint segmentation of tissues and brain lesions from task-specific hetero-modal domain-shifted datasets. - Reuben Dorent; Thomas C. Booth; Wenqi Li 001; Carole H. Sudre; Sina Kafiabadi; Manuel Jorge Cardoso; Sébastien Ourselin; Tom Vercauteren (Medical Image Anal., 2021)

Imitation learning for improved 3D PET/MR attenuation correction. - Kerstin Kläser 002; Thomas Varsavsky; Pawel Markiewicz; Tom Vercauteren; Alexander Hammers; David Atkinson; Kris Thielemans; Brian F. Hutton; Manuel Jorge Cardoso; Sébastien Ourselin (Medical Image Anal., 2021)

Uncertainty analysis of MR-PET image registration for precision neuro-PET imaging. - Pawel J. Markiewicz; Julian C. Matthews; John Ashburner; David M. Cash; David L. Thomas; Enrico De Vita; Anna Barnes; M. Jorge Cardoso; Marc Modat; Richard Brown 004; Kris Thielemans; Casper O. da Costa-Luis; et al. (NeuroImage, 2021)

Robust parametric modeling of Alzheimer's disease progression. - Mostafa Mehdipour-Ghazi; Mads Nielsen; Akshay Pai; Marc Modat; M. Jorge Cardoso; Sébastien Ourselin; Lauge Sørensen (NeuroImage, 2021)

DeepEdit: Deep Editable Learning for Interactive Segmentation of 3D Medical Images. - Andres Diaz-Pinto; Pritesh Mehta; Sachidanand Alle; Muhammad Asad 001; Richard Brown 004; Vishwesh Nath; Alvin Ihsani; Michela Antonelli; Daniel Palkovics; Csaba Pinter; Ron Alkalay; Steve Pieper 001; et al. (DALI@MICCAI, 2022)

Can Segmentation Models Be Trained with Fully Synthetically Generated Data? - Virginia Fernandez; Walter Hugo Lopez Pinaya; Pedro Borges; Petru-Daniel Tudosiu; Mark S. Graham; Tom Vercauteren; M. Jorge Cardoso (SASHIMI@MICCAI, 2022)

Cross Attention Transformers for Multi-modal Unsupervised Whole-Body PET Anomaly Detection. - Ashay Patel; Petru-Daniel Tudosiu; Walter Hugo Lopez Pinaya; Gary J. Cook; Vicky Goh; Sébastien Ourselin; M. Jorge Cardoso (DGM4MICCAI@MICCAI, 2022)

Fast Unsupervised Brain Anomaly Detection and Segmentation with Diffusion Models. - Walter H. L. Pinaya; Mark S. Graham; Robert J. Gray; Pedro F. Da Costa; Petru-Daniel Tudosiu; Paul Wright 001; Yee-Haur Mah; Andrew D. MacKinnon; James T. Teo; Hans Rolf Jäger; David Werring; Geraint Rees 001; et al. (MICCAI (8), 2022)

Brain Imaging Generation with Latent Diffusion Models. - Walter H. L. Pinaya; Petru-Daniel Tudosiu; Jessica Dafflon; Pedro F. Da Costa; Virginia Fernandez; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (DGM4MICCAI@MICCAI, 2022)

Morphology-Preserving Autoregressive 3D Generative Modelling of the Brain. - Petru-Daniel Tudosiu; Walter Hugo Lopez Pinaya; Mark S. Graham; Pedro Borges; Virginia Fernandez; Dai Yang; Jeremy Appleyard; Guido Novati; Disha Mehra; Mike Vella; Parashkev Nachev; Sébastien Ourselin; et al. (SASHIMI@MICCAI, 2022)

Transformer-based out-of-distribution detection for clinically safe segmentation. - Mark S. Graham; Petru-Daniel Tudosiu; Paul Wright 001; Walter Hugo Lopez Pinaya; Jean-Marie U.-King-Im; Yee-Haur Mah; James T. Teo; Hans Rolf Jäger; David Werring; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2022)

Fitting Segmentation Networks on Varying Image Resolutions Using Splatting. - Mikael Brudfors; Yaël Balbastre; John Ashburner; Geraint Rees 001; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MIUA, 2022)

CrossMoDA 2021 challenge: Benchmark of Cross-Modality Domain Adaptation techniques for Vestibular Schwnannoma and Cochlea Segmentation. - Reuben Dorent; Aaron Kujawa; Marina Ivory; Spyridon Bakas; Nicola Rieke; Samuel Joutard; Ben Glocker; Jorge Cardoso 002; Marc Modat; Kayhan Batmanghelich; Arseniy Belkov; Maria G. Baldeon Calisto; et al. (CoRR, 2022)

Augmentation based unsupervised domain adaptation. - Mauricio Orbes-Arteaga; Thomas Varsavsky; Lauge Sørensen; Mads Nielsen; Akshay Pai; Sébastien Ourselin; Marc Modat; M. Jorge Cardoso (CoRR, 2022)

MONAI Label: A framework for AI-assisted Interactive Labeling of 3D Medical Images. - Andres Diaz-Pinto; Sachidanand Alle; Alvin Ihsani; Muhammad Asad 001; Vishwesh Nath; Fernando Pérez-García; Pritesh Mehta; Wenqi Li 001; Holger R. Roth; Tom Vercauteren; Daguang Xu; Prerna Dogra; et al. (CoRR, 2022)

Metrics reloaded: Pitfalls and recommendations for image analysis validation. - Lena Maier-Hein; Annika Reinke; Evangelia Christodoulou; Ben Glocker; Patrick Godau; Fabian Isensee; Jens Kleesiek; Michal Kozubek 001; Mauricio Reyes 001; Michael A. Riegler; Manuel Wiesenfarth; Michael Baumgartner 001; et al. (CoRR, 2022)

Solid NURBS Conforming Scaffolding for Isogeometric Analysis. - Stefano Moriconi; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (CoRR, 2022)

MONAI: An open-source framework for deep learning in healthcare. - M. Jorge Cardoso; Wenqi Li 001; Richard Brown 004; Nic Ma; Eric Kerfoot; Yiheng Wang; Benjamin Murray; Andriy Myronenko; Can Zhao 001; Dong Yang 005; Vishwesh Nath; Yufan He; et al. (CoRR, 2022)

Transformer-based normative modelling for anomaly detection of early schizophrenia. - Pedro F. Da Costa; Jessica Dafflon; Sergio Leonardo Mendes; João Ricardo Sato; M. Jorge Cardoso; Robert Leech; Emily J. H. Jones; Walter Hugo Lopez Pinaya (CoRR, 2022)

Current State of Community-Driven Radiological AI Deployment in Medical Imaging. - Vikash Gupta; Barbaros Selnur Erdal; Carolina Ramirez; Ralf Floca; Laurence Jackson; Brad W. Genereaux; Sidney Bryson; Christopher P. Bridge; Jens Kleesiek; Felix Nensa; Rickmer Braren; Khaled Younis; et al. (CoRR, 2022)

Unsupervised brain imaging 3D anomaly detection and segmentation with transformers. - Walter H. L. Pinaya; Petru-Daniel Tudosiu; Robert J. Gray; Geraint Rees 001; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (Medical Image Anal., 2022)

Deep forecasting of translational impact in medical research. - Amy P. K. Nelson; Robert J. Gray; James K. Ruffle; Henry C. Watkins; Daniel Herron; Nick Sorros; Danil Mikhailov; M. Jorge Cardoso; Sébastien Ourselin; Nick McNally; Bryan Williams; Geraint E. Rees; et al. (Patterns, 2022)

3d_very_deep_vae. - Robert J. Gray; Matthew Graham; M. Jorge Cardoso; Sébastien Ourselin; Geraint Rees 001; Parashkev Nachev (Zenodo, 2022)

Framework to Generate Perfusion Map from CT and CTA Images in Patients with Acute Ischemic Stroke: A Longitudinal and Cross-Sectional Study. - Chayanin Tangwiriyasakul; Pedro Borges; Stefano Moriconi; Paul Wright 001; Yee-Haur Mah; James T. Teo; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (BrainLes/SWITCH@MICCAI, 2023)

Denoising diffusion models for out-of-distribution detection. - Mark S. Graham; Walter H. L. Pinaya; Petru-Daniel Tudosiu; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (CVPR Workshops, 2023)

Self-Supervised Anomaly Detection from Anomalous Training Data via Iterative Latent Token Masking. - Ashay Patel; Petru-Daniel Tudosiu; Walter H. L. Pinaya; Mark S. Graham; Olusola Adeleke; Gary J. Cook; Vicky Goh; Sébastien Ourselin; M. Jorge Cardoso (ICCV (Workshops), 2023)

Unsupervised Heteromodal Physics-Informed Representation of MRI Data: Tackling Data Harmonisation, Imputation and Domain Shift. - Pedro Borges; Virginia Fernandez; Petru-Daniel Tudosiu; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (SASHIMI@MICCAI, 2023)

A 3D Generative Model of Pathological Multi-modal MR Images and Segmentations. - Virginia Fernandez; Walter Hugo Lopez Pinaya; Pedro Borges; Mark S. Graham; Tom Vercauteren; M. Jorge Cardoso (DGM4MICCAI, 2023)

Privacy Distillation: Reducing Re-identification Risk of Diffusion Models. - Virginia Fernandez; Pedro Sanchez; Walter Hugo Lopez Pinaya; Grzegorz Jacenków; Sotirios A. Tsaftaris; M. Jorge Cardoso (DGM4MICCAI, 2023)

Unsupervised 3D Out-of-Distribution Detection with Latent Diffusion Models. - Mark S. Graham; Walter Hugo Lopez Pinaya; Paul Wright 001; Petru-Daniel Tudosiu; Yee-Haur Mah; James T. Teo; Hans Rolf Jäger; David Werring; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (1), 2023)

Geometry-Invariant Abnormality Detection. - Ashay Patel; Petru-Daniel Tudosiu; Walter Hugo Lopez Pinaya; Olusola Adeleke; Gary J. Cook; Vicky Goh; Sébastien Ourselin; M. Jorge Cardoso (MICCAI (1), 2023)

InverseSR: 3D Brain MRI Super-Resolution Using a Latent Diffusion Model. - Jueqi Wang; Jacob Levman; Walter Hugo Lopez Pinaya; Petru-Daniel Tudosiu; M. Jorge Cardoso; Razvan V. Marinescu (MICCAI (10), 2023)

InterSynth: A Semi-Synthetic Framework for Benchmarking Prescriptive Inference from Observational Data. - Dominic Giles; Robert J. Gray; Chris Foulon; Guilherme Pombo; Tianbo Xu; James K. Ruffle; Hans Rolf Jäger; Manuel Jorge Cardoso; Sébastien Ourselin; Geraint Rees 001; Ashwani Jha; Parashkev Nachev (ML4MHD, 2023)

Leveraging Ellipsoid Bounding Shapes and Fast R-CNN for Enlarged Perivascular Spaces Detection and Segmentation. - Mariam Zabihi; Chayanin Tangwiriyasakul; Silvia Ingala; Luigi Lorenzini; Robin Camarasa; Frederik Barkhof; Marleen de Bruijne; M. Jorge Cardoso; Carole H. Sudre (MLMI@MICCAI (2), 2023)

Sleep-Energy: An Energy Optimization Method to Sleep Stage Scoring. - Bruno Aristimunha; Alexandre Janoni Bayerlein; M. Jorge Cardoso; Walter Hugo Lopez Pinaya; Raphael Yokoingawa de Camargo (IEEE Access, 2023)

Understanding metric-related pitfalls in image analysis validation. - Annika Reinke; Minu Tizabi; Michael Baumgartner 001; Matthias Eisenmann; Doreen Heckmann-Nötzel; A. Emre Kavur; Tim Rädsch; Carole H. Sudre; Laura Ación; Michela Antonelli; Tal Arbel; Spyridon Bakas; et al. (CoRR, 2023)

Generative AI for Medical Imaging: extending the MONAI Framework. - Walter H. L. Pinaya; Mark S. Graham; Eric Kerfoot; Petru-Daniel Tudosiu; Jessica Dafflon; Virginia Fernandez; Pedro Sanchez; Julia Wolleb; Pedro F. Da Costa; Ashay Patel; Hyungjin Chung; Can Zhao 001; et al. (CoRR, 2023)

RAISE - Radiology AI Safety, an End-to-end lifecycle approach. - M. Jorge Cardoso; Julia Moosbauer; Tessa Sundaram Cook; Barbaros Selnur Erdal; Brad W. Genereaux; Vikash Gupta; Bennett A. Landman; Tiarna Lee; Parashkev Nachev; Elanchezhian Somasundaram; Ronald M. Summers; Khaled Younis; et al. (CoRR, 2023)

The Liver Tumor Segmentation Benchmark (LiTS). - Patrick Bilic; Patrick Ferdinand Christ; Hongwei Li 004; Eugene Vorontsov; Avi Ben-Cohen; Georgios Kaissis; Adi Szeskin; Colin Jacobs; Gabriel Efrain Humpire Mamani; Gabriel Chartrand; Fabian Lohöfer; Julian Walter Holch; et al. (Medical Image Anal., 2023)

CrossMoDA 2021 challenge: Benchmark of cross-modality domain adaptation techniques for vestibular schwannoma and cochlea segmentation. - Reuben Dorent; Aaron Kujawa; Marina Ivory; Spyridon Bakas; Nicola Rieke; Samuel Joutard; Ben Glocker; M. Jorge Cardoso; Marc Modat; Kayhan Batmanghelich; Arseniy Belkov; Maria G. Baldeon Calisto; et al. (Medical Image Anal., 2023)

Equitable modelling of brain imaging by counterfactual augmentation with morphologically constrained 3D deep generative models. - Guilherme Pombo; Robert J. Gray; M. Jorge Cardoso; Sébastien Ourselin; Geraint Rees 001; John Ashburner; Parashkev Nachev (Medical Image Anal., 2023)

NiftyPAD - Novel Python Package for Quantitative Analysis of Dynamic PET Data. - Jieqing Jiao; Fiona Heeman; Rachael Dixon; Catriona Wimberley; Isadora Lopes Alves; Juan Domingo Gispert; Adriaan A. Lammertsma; Bart N. M. van Berckel; Casper O. da Costa-Luis; Pawel Markiewicz; David M. Cash; M. Jorge Cardoso; et al. (Neuroinformatics, 2023)

Latent Transformer Models for out-of-distribution detection. - Mark S. Graham; Petru-Daniel Tudosiu; Paul Wright 001; Walter Hugo Lopez Pinaya; Petteri Teikari; Ashay Patel; Jean-Marie U.-King-Im; Yee-Haur Mah; James T. Teo; Hans Rolf Jäger; David Werring; Geraint Rees 001; et al. (Medical Image Anal., 2023)

Using MR Physics for Domain Generalisation and Super-Resolution. - Pedro Borges; Virginia Fernandez; Petru-Daniel Tudosiu; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (SASHIMI@MICCAI, 2024)

Confidence Intervals Uncovered: Are We Ready for Real-World Medical Imaging AI? - Evangelia Christodoulou; Annika Reinke; Rola Houhou; Piotr Kalinowski; Selen Erkan; Carole H. Sudre; Ninon Burgos; Sofiène Boutaj; Sophie Loizillon; Maëlys Solal; Nicola Rieke; Veronika Cheplygina; et al. (MICCAI (10), 2024)

Resolution and Field of View Invariant Generative Modelling with Latent Diffusion Models. - Ashay Patel; Mark S. Graham; Vicky Goh; Sébastien Ourselin; M. Jorge Cardoso (MIDL, 2024)

Lazy Resampling: Fast and information preserving preprocessing for deep learning. - Benjamin Murray; Richard Brown 004; Pengcheng Ma; Eric Kerfoot; Daguang Xu; Andrew Feng; Jorge Cardoso 002; Sébastien Ourselin; Marc Modat (Comput. Methods Programs Biomed., 2024)

Cortical Surface Diffusion Generative Models. - Zhenshan Xie; Simon Dahan; Logan Z. J. Williams; M. Jorge Cardoso; Emma C. Robinson (CoRR, 2024)

MONAI Label: A framework for AI-assisted interactive labeling of 3D medical images. - Andres Diaz-Pinto; Sachidanand Alle; Vishwesh Nath; Yucheng Tang; Alvin Ihsani; Muhammad Asad 001; Fernando Pérez-García; Pritesh Mehta; Wenqi Li 001; Mona Flores; Holger R. Roth; Tom Vercauteren; et al. (Medical Image Anal., 2024)

Generating multi-pathological and multi-modal images and labels for brain MRI. - Virginia Fernandez; Walter Hugo Lopez Pinaya; Pedro Borges; Mark S. Graham; Petru-Daniel Tudosiu; Tom Vercauteren; M. Jorge Cardoso (Medical Image Anal., 2024)

Realistic morphology-preserving generative modelling of the brain. - Petru-Daniel Tudosiu; Walter H. L. Pinaya; Pedro Ferreira Da Costa; Jessica Dafflon; Ashay Patel; Pedro Borges; Virginia Fernandez; Mark S. Graham; Robert J. Gray; Parashkev Nachev; Sébastien Ourselin; M. Jorge Cardoso (Nat. Mac. Intell., 2024)

Acquisition-invariant brain MRI segmentation with informative uncertainties. - Pedro Borges; Richard Shaw; Thomas Varsavsky; Kerstin Kläser 002; David Thomas 002; Ivana Drobnjak; Sébastien Ourselin; M. Jorge Cardoso (Medical Image Anal., 2024)

Neuradicon: Operational representation learning of neuroimaging reports. - Henry C. Watkins; Robert J. Gray; Adam Julius; Yee-Haur Mah; James T. Teo; Walter H. L. Pinaya; Paul Wright 001; Ashwani Jha; Holger Engleitner; Jorge Cardoso 002; Sébastien Ourselin; Geraint Rees 001; et al. (Comput. Methods Programs Biomed., 2025)

Deep generative computed perfusion-deficit mapping of ischaemic stroke. - Chayanin Tangwiriyasakul; Pedro Borges; Guilherme Pombo; Stefano Moriconi; Michael S. Elmalem; Paul Wright 001; Yee-Haur Mah; Jane Rondina; Robert J. Gray; Sébastien Ourselin; Parashkev Nachev; M. Jorge Cardoso (CoRR, 2025)

Generalizable automated ischaemic stroke lesion segmentation with vision transformers. - Chris Foulon; Robert J. Gray; James K. Ruffle; Jonathan Best; Tianbo Xu; Henry C. Watkins; Jane Rondina; Guilherme Pombo; Dominic Giles; Paul Wright 001; Marcela Ovando Tellez; Hans Rolf Jäger; et al. (CoRR, 2025)

Resolution Invariant Autoencoder. - Ashay Patel; Michela Antonelli; Sébastien Ourselin; M. Jorge Cardoso (CoRR, 2025)

False Promises in Medical Imaging AI? Assessing Validity of Outperformance Claims. - Evangelia Christodoulou; Annika Reinke; Pascaline Andrè; Patrick Godau; Piotr Kalinowski; Rola Houhou; Selen Erkan; Carole H. Sudre; Ninon Burgos; Sofiène Boutaj; Sophie Loizillon; Maëlys Solal; et al. (CoRR, 2025)

MAIS: Memory-Attention for Interactive Segmentation. - Mauricio Orbes-Arteaga; Oeslle Lucena; Sébastien Ourselin; M. Jorge Cardoso (CoRR, 2025)

MR-CLIP: Efficient Metadata-Guided Learning of MRI Contrast Representations. - Mehmet Yigit Avci; Pedro Borges; Paul Wright 001; Mehmet Yigitsoy; Sébastien Ourselin; Manuel Jorge Cardoso (CoRR, 2025)