An evaluation of physically based statistical colour models for image region characterisation. - Daniel C. Alexander; Bernard F. Buxton (ICIP (3), 1996)

Implementational Improvements for Active Region Models. - Daniel C. Alexander; Bernard F. Buxton (BMVC, 1997)

Modelling of single mode distributions of colour data using directional statistics. - Daniel C. Alexander; Bernard F. Buxton (CVPR, 1997)

Similarity Measures for Matching Diffusion Tensor Images. - Daniel C. Alexander; James C. Gee; Ruzena Bajcsy (BMVC, 1999)

Advances in Daylight Statistical Colour Modelling. - Daniel C. Alexander (CVPR, 1999)

Elastic Matching of Diffusion Tensor MRIs. - Daniel C. Alexander; James C. Gee; Ruzena Bajcsy (CVPR, 1999)

Strategies for Data Reorientation during Non-rigid Warps of Diffusion Tensor Images. - Daniel C. Alexander; James C. Gee; Ruzena Bajcsy (MICCAI, 1999)

Techniques for spatial normalization of diffusion tensor images. - Daniel C. Alexander; Carlo Pierpaoli; Peter J. Basser; James C. Gee (Image Processing, 2000)

Elastic Matching of Diffusion Tensor Images. - Daniel C. Alexander; James C. Gee (Comput. Vis. Image Underst., 2000)

A Regularization Scheme for Diffusion Tensor Magnetic Resonance Images. - Olivier Coulon; Daniel C. Alexander; Simon R. Arridge (IPMI, 2001)

Statistical Modeling of Colour Data. - Daniel C. Alexander; Bernard F. Buxton (Int. J. Comput. Vis., 2001)

Spatial Transformations of Diffusion Tensor Magnetic Resonance Images. - Daniel C. Alexander; Carlo Pierpaoli; Peter J. Basser; James C. Gee (IEEE Trans. Medical Imaging, 2001)

Non-rigid registration of diffusion tensor MR images. - James C. Gee; Daniel C. Alexander; Mariano Rivera; Jeffrey T. Duda (ISBI, 2002)

Spatial Normalization and Averaging of Diffusion Tensor MRI Data Sets. - Derek K. Jones; Lewis D. Griffin; Daniel C. Alexander; Marco Catani; Mark A. Horsfield; Robert J. Howard; Steven C. R. Williams (NeuroImage, 2002)

Persistent Angular Structure: New Insights from Diffusion MRI Data. Dummy Version. - Kalvis M. Jansons; Daniel C. Alexander (IPMI, 2003)

Probabilistic Monte Carlo Based Mapping of Cerebral Connections Utilising Whole-Brain Crossing Fibre Information. - Geoffrey J. M. Parker; Daniel C. Alexander (IPMI, 2003)

Diffusion Tensor Orientation Matching for Image Registration. - Kathleen M. Curran; Daniel C. Alexander (Image Processing, 2003)

A method for non-rigid registration of diffusion tensor magnetic resonance images. - Jeffrey T. Duda; Mariano Rivera; Daniel C. Alexander; James C. Gee (Image Processing, 2003)

Visualizing Diffusion-Weighted MRI Data Using Collaborative Virtual Environment and Grid Technologies. - Anthony Steed; Daniel C. Alexander; Philip A. Cook; Chris Parker (TPCG, 2003)

Modelling Noise-Induced Fibre-Orientation Error in Diffusion-Tensor MRI. - Philip A. Cook; Daniel C. Alexander; Geoffrey J. M. Parker (ISBI, 2004)

Diffusion tensor magnetic resonance image regularization. - Olivier Coulon; Daniel C. Alexander; Simon R. Arridge (Medical Image Anal., 2004)

Maximum Entropy Spherical Deconvolution for Diffusion MRI. - Daniel C. Alexander (IPMI, 2005)

An Automated Approach to Connectivity-Based Partitioning of Brain Structures. - Philip A. Cook; Hui Zhang 005; Brian B. Avants; Paul A. Yushkevich; Daniel C. Alexander; James C. Gee; Olga Ciccarelli; Alan J. Thompson (MICCAI, 2005)

Optimal imaging parameters for fiber-orientation estimation in diffusion MRI. - Daniel C. Alexander; Gareth J. Barker (NeuroImage, 2005)

Lateralization of ventral and dorsal auditory-language pathways in the human brain. - Geoffrey J. M. Parker; Simona Luzzi; Daniel C. Alexander; Claudia A. M. Wheeler-Kingshott; Olga Ciccarelli; Matthew A. Lambon Ralph (NeuroImage, 2005)

An Introduction to Computational Diffusion MRI: the Diffusion Tensor and Beyond. - Daniel C. Alexander (Visualization and Processing of Tensor Fields, 2006)

Diffusion-Tensor Image Registration. - James C. Gee; Daniel C. Alexander (Visualization and Processing of Tensor Fields, 2006)

Deformable registration of diffusion tensor MR images with explicit orientation optimization. - Hui Zhang 005; Paul A. Yushkevich; Daniel C. Alexander; James C. Gee (Medical Image Anal., 2006)

Hemispheric asymmetries in language-related pathways: A combined functional MRI and tractography study. - H. W. Robert Powell; Geoffrey J. M. Parker; Daniel C. Alexander; Mark R. Symms; Philip A. Boulby; Claudia A. M. Wheeler-Kingshott; Gareth J. Barker; Uta Noppeney; Matthias J. Koepp; John S. Duncan (NeuroImage, 2006)

Colour Transfer by Feature Based Histogram Registration. - Christopher Rohan Senanayake; Daniel C. Alexander (BMVC, 2007)

Axon radius measurements in vivo from diffusion MRI: a feasibility study. - Daniel C. Alexander (ICCV, 2007)

Exploiting peak anisotropy for tracking through complex structures. - Kiran K. Seunarine; Philip A. Cook; Matt G. Hall; Karl V. Embleton; Geoffrey J. M. Parker; Daniel C. Alexander (ICCV, 2007)

Validation of in vitro probabilistic tractography. - Tim B. Dyrby; Lise V. Søgaard; Geoffrey J. M. Parker; Daniel C. Alexander; Nanna M. Lind; William F. C. Baaré; Anders Hay-Schmidt; Nina Eriksen; Bente Pakkenberg; Olaf B. Paulson; Jacob Jelsing (NeuroImage, 2007)

Abnormalities of language networks in temporal lobe epilepsy. - H. W. Robert Powell; Geoffrey J. M. Parker; Daniel C. Alexander; Mark R. Symms; Philip A. Boulby; Claudia A. M. Wheeler-Kingshott; Gareth J. Barker; Matthias J. Koepp; John S. Duncan (NeuroImage, 2007)

Guest Editorial Special Issue on Computational Diffusion MRI. - Daniel C. Alexander; T. Jiang; Carl-Fredrik Westin (IEEE Trans. Medical Imaging, 2007)

Supervised methods for perfect segmentation in medical images. - Tony Shepherd; Daniel C. Alexander (ICIP, 2008)

Model-based registration to correct for motion between acquisitions in diffusion MR imaging. - Yu Bai; Daniel C. Alexander (ISBI, 2008)

Regularized super-resolution for diffusion MRI. - Shahrum Nedjati-Gilani; Daniel C. Alexander; Geoffrey J. M. Parker (ISBI, 2008)

Tractography of the parahippocampal gyrus and material specific memory impairment in unilateral temporal lobe epilepsy. - Mahinda Yogarajah; H. W. Robert Powell; Geoffrey J. M. Parker; Daniel C. Alexander; Pamela J. Thompson; Mark R. Symms; Philip A. Boulby; Claudia A. M. Wheeler-Kingshott; Gareth J. Barker; Matthias J. Koepp; John S. Duncan (NeuroImage, 2008)

Active Imaging with Dual Spin-Echo Diffusion MRI. - Jonathan D. Clayden; Zoltán Nagy 003; Matt G. Hall; Chris A. Clark; Daniel C. Alexander (IPMI, 2009)

Two-Compartment Models of the Diffusion MR Signal in Brain White Matter. - Eleftheria Panagiotaki; Hubert M. J. Fonteijn; Bernard Siow; Matt G. Hall; Anthony Price; Mark F. Lythgoe; Daniel C. Alexander (MICCAI (1), 2009)

Convergence and Parameter Choice for Monte-Carlo Simulations of Diffusion MRI. - Matt G. Hall; Daniel C. Alexander (IEEE Trans. Medical Imaging, 2009)

Using the Model-Based Residual Bootstrap to Quantify Uncertainty in Fiber Orientations From Q -Ball Analysis. - Hamied A. Haroon; David M. Morris; Karl V. Embleton; Daniel C. Alexander; Geoffrey J. M. Parker (IEEE Trans. Medical Imaging, 2009)

Optimization of the DCE-CT protocol using active imaging. - Raphael Prevost; David L. Buckley; Daniel C. Alexander (ISBI, 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)

High-Fidelity Meshes from Tissue Samples for Diffusion MRI Simulations. - Eleftheria Panagiotaki; Matt G. Hall; Hui Zhang 005; Bernard Siow; Mark F. Lythgoe; Daniel C. Alexander (MICCAI (2), 2010)

In-Vivo Estimates of Axonal Characteristics Using Optimized Diffusion MRI Protocols for Single Fibre Orientation. - Torben Schneider; Claudia A. M. Wheeler-Kingshott; Daniel C. Alexander (MICCAI (1), 2010)

MicroTrack: An Algorithm for Concurrent Projectome and Microstructure Estimation. - Anthony J. Sherbondy; Matthew C. Rowe; Daniel C. Alexander (MICCAI (1), 2010)

Axon Diameter Mapping in the Presence of Orientation Dispersion with Diffusion MRI. - Hui Zhang 005; Daniel C. Alexander (MICCAI (1), 2010)

Orientationally invariant indices of axon diameter and density from diffusion MRI. - Daniel C. Alexander; Penny L. Hubbard; Matt G. Hall; Elizabeth A. Moore; Maurice Ptito; Geoffrey J. M. Parker; Tim B. Dyrby (NeuroImage, 2010)

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)

Exploiting hierarchy in structural brain networks. - Fani Deligianni; Emma C. Robinson; David J. Sharp; A. David Edwards; Daniel Rueckert; Daniel C. Alexander (ISBI, 2011)

Axon Diameter Mapping in Crossing Fibers with Diffusion MRI. - Hui Zhang 005; Tim B. Dyrby; Daniel C. Alexander (MICCAI (2), 2011)

Hierarchy in structural brain networks. - Fani Deligianni; Emma C. Robinson; David J. Sharp; A. David Edwards; Daniel Rueckert; Daniel C. Alexander (MIUA, 2011)

A Bayesian framework for modelling the regional variation of white matter microstructure. - Gemma Louise Morgan; Hui Zhang 005; Brandon J. Whitcher; Daniel C. Alexander (MIUA, 2011)

Predicting Clinically Definite Multiple Sclerosis from Onset Using SVM. - Philip P. Kwok; Olga Ciccarelli; Declan T. Chard; David H. Miller; Daniel C. Alexander (MLINI, 2011)

Axon diameter mapping in the presence of orientation dispersion with diffusion MRI. - Hui Zhang 005; Penny L. Hubbard; Geoffrey J. M. Parker; Daniel C. Alexander (NeuroImage, 2011)

Probabilistic Event Cascades for Alzheimer's disease. - Jonathan Huang; Daniel C. Alexander (NIPS, 2012)

NODDI: Practical in vivo neurite orientation dispersion and density imaging of the human brain. - Hui Zhang 005; Torben Schneider; Claudia A. M. Wheeler-Kingshott; Daniel C. Alexander (NeuroImage, 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)

Structure Tensor Informed Fiber Tractography (STIFT) by combining gradient echo MRI and diffusion weighted imaging. - Michiel Kleinnijenhuis; Markus Barth; Daniel C. Alexander; Anne-Marie van Cappellen van Walsum; David G. Norris (NeuroImage, 2012)

Compartment models of the diffusion MR signal in brain white matter: A taxonomy and comparison. - Eleftheria Panagiotaki; Torben Schneider; Bernard Siow; Matt G. Hall; Mark F. Lythgoe; Daniel C. Alexander (NeuroImage, 2012)

Interactive Lesion Segmentation with Shape Priors From Offline and Online Learning. - Tony Shepherd; Simon J. D. Prince; Daniel C. Alexander (IEEE Trans. Medical Imaging, 2012)

Can T 2 -Spectroscopy Resolve Submicrometer Axon Diameters? - Enrico Kaden; Daniel C. Alexander (IPMI, 2013)

Beyond Crossing Fibers: Tractography Exploiting Sub-voxel Fibre Dispersion and Neighbourhood Structure. - Matthew C. Rowe; Hui Gary Zhang; Neil Oxtoby; Daniel C. Alexander (IPMI, 2013)

Ranking diffusion-MRI models with in-vivo human brain data. - Uran Ferizi; Torben Schneider; Eleftheria Panagiotaki; Gemma L. Nedjati-Gilani; Hui Gary Zhang; Claudia A. M. Wheeler-Kingshott; Daniel C. Alexander (ISBI, 2013)

Tract-oriented statistical group comparison of diffusion in sheet-like white matter. - Mark Lyksborg; Tim Bjørn Dyrby; Per Soelberg Sørensen; Morten Blinkenberg; Hartwig Roman Siebner; Daniel C. Alexander; Rasmus Larsen 001; Hui Zhang 005 (ISBI, 2013)

The Importance of Being Dispersed: A Ranking of Diffusion MRI Models for Fibre Dispersion Using In Vivo Human Brain Data. - Uran Ferizi; Torben Schneider; Maira Tariq; Claudia A. M. Wheeler-Kingshott; Hui Gary Zhang; Daniel C. Alexander (MICCAI (1), 2013)

Prediction of Second Neurological Attack in Patients with Clinically Isolated Syndrome Using Support Vector Machines. - Viktor Wottschel; Olga Ciccarelli; Declan T. Chard; David H. Miller; Daniel C. Alexander (PRNI, 2013)

The CONNECT project: Combining macro- and micro-structure. - Yaniv Assaf; Daniel C. Alexander; Derek K. Jones; Alberto Bizzi; Tim E. J. Behrens; Chris A. Clark; Yoram Cohen; Tim B. Dyrby; Petra S. Huppi; Thomas R. Knösche; Denis Le Bihan; Geoffrey J. M. Parker; et al. (NeuroImage, 2013)

Learning Imaging Biomarker Trajectories from Noisy Alzheimer's Disease Data Using a Bayesian Multilevel Model. - Neil P. Oxtoby; Alexandra L. Young; Nick C. Fox; Pankaj Daga; David M. Cash; Sébastien Ourselin; Jonathan M. Schott; Daniel C. Alexander (BAMBI, 2014)

Modelling Vascularity in Breast Cancer and Surrounding Stroma Using Diffusion MRI and Intravoxel Incoherent Motion. - Colleen Bailey; Sarah Vinnicombe; Eleftheria Panagiotaki; Shelley A. Waugh; John H. Hipwell; Daniel C. Alexander; Kathryn Kitching; Patsy J. Whelehan; Sarah E. Pinder; Andrew Evans; David J. Hawkes (Digital Mammography / IWDM, 2014)

Image Quality Transfer via Random Forest Regression: Applications in Diffusion MRI. - Daniel C. Alexander; Darko Zikic; Jiaying Zhang 001; Hui Zhang 005; Antonio Criminisi (MICCAI (3), 2014)

Gleason Grading of Prostate Tumours with Max-Margin Conditional Random Fields. - Joseph G. Jacobs; Eleftheria Panagiotaki; Daniel C. Alexander (MLMI, 2014)

Machine Learning Based Compartment Models with Permeability for White Matter Microstructure Imaging. - Gemma L. Nedjati-Gilani; Torben Schneider; Matt G. Hall; Claudia A. M. Wheeler-Kingshott; Daniel C. Alexander (MICCAI (3), 2014)

In vivo Estimation of Dispersion Anisotropy of Neurites Using Diffusion MRI. - Maira Tariq; Torben Schneider; Daniel C. Alexander; Claudia A. M. Wheeler-Kingshott; Hui Zhang 005 (MICCAI (3), 2014)

Assessing white matter microstructure of the newborn with multi-shell diffusion MRI and biophysical compartment models. - Nicolas Kunz; Hui Zhang 005; Lana Vasung; Kieran O'Brien; Yaniv Assaf; François Lazeyras; Daniel C. Alexander; Petra S. Hüppi (NeuroImage, 2014)

Image Registration. - Daniel C. Alexander (Computer Vision, A Reference Guide, 2014)

Accelerated microstructure imaging via convex optimisation for regions with multiple fibres (AMICOx). - Anna Auría; David Romascano; E. Canales-Rodriguen; Yves Wiaux; T. B. Dirby; Daniel C. Alexander; Jean-Philippe Thiran; Alessandro Daducci (ICIP, 2015)

Modelling Non-stationary and Non-separable Spatio-Temporal Changes in Neurodegeneration via Gaussian Process Convolution. - Marco Lorenzi; Gabriel Ziegler; Daniel C. Alexander; Sébastien Ourselin (MLMMI@ICML, 2015)

Model-Based Estimation of Microscopic Anisotropy in Macroscopically Isotropic Substrates Using Diffusion MRI. - Andrada Ianus; Ivana Drobnjak; Daniel C. Alexander (IPMI, 2015)

Efficient Gaussian Process-Based Modelling and Prediction of Image Time Series. - Marco Lorenzi; Gabriel Ziegler; Daniel C. Alexander; Sébastien Ourselin (IPMI, 2015)

Multiple Orderings of Events in Disease Progression. - Alexandra L. Young; Neil P. Oxtoby; Jonathan Huang; Razvan V. Marinescu; Pankaj Daga; David M. Cash; Nick C. Fox; Sébastien Ourselin; Jonathan M. Schott; Daniel C. Alexander (IPMI, 2015)

A simulation system for biomarker evolution in neurodegenerative disease. - Alexandra L. Young; Neil P. Oxtoby; Sébastien Ourselin; Jonathan M. Schott; Daniel C. Alexander (Medical Image Anal., 2015)

Accelerated Microstructure Imaging via Convex Optimization (AMICO) from diffusion MRI data. - Alessandro Daducci; Erick Jorge Canales-Rodríguez; Hui Zhang 005; Tim B. Dyrby; Daniel C. Alexander; Jean-Philippe Thiran (NeuroImage, 2015)

White matter compartment models for in vivo diffusion MRI at 300 mT/m. - Uran Ferizi; Torben Schneider; Thomas Witzel; Lawrence L. Wald; Hui Zhang 005; Claudia A. M. Wheeler-Kingshott; Daniel C. Alexander (NeuroImage, 2015)

Neurite orientation dispersion and density imaging of the healthy cervical spinal cord in vivo. - Francesco Grussu; Torben Schneider; Hui Zhang 005; Daniel C. Alexander; Claudia A. M. Wheeler-Kingshott (NeuroImage, 2015)

Microstructure Imaging Sequence Simulation Toolbox. - Andrada Ianus; Daniel C. Alexander; Ivana Drobnjak (SASHIMI@MICCAI, 2016)

Bayesian Image Quality Transfer. - Ryutaro Tanno; Aurobrata Ghosh; Francesco Grussu; Enrico Kaden; Antonio Criminisi; Daniel C. Alexander (MICCAI (2), 2016)

Application of neurite orientation dispersion and density imaging (NODDI) to a tau pathology model of Alzheimer's disease. - Niall Colgan; Bernard Siow; James M. O'Callaghan; Ian F. Harrison; Jack A. Wells; Holly E. Holmes; Ozama Ismail; Simon Richardson; Daniel C. Alexander; Emily C. Collins 002; Elizabeth M. C. Fisher; Ross A. Johnson; et al. (NeuroImage, 2016)

Multi-compartment microscopic diffusion imaging. - Enrico Kaden; Nathaniel D. Kelm; Robert P. Carson; Mark D. Does; Daniel C. Alexander (NeuroImage, 2016)

Bingham-NODDI: Mapping anisotropic orientation dispersion of neurites using diffusion MRI. - Maira Tariq; Torben Schneider; Daniel C. Alexander; Claudia A. M. Wheeler-Kingshott; Hui Zhang 005 (NeuroImage, 2016)

A Vertex Clustering Model for Disease Progression: Application to Cortical Thickness Images. - Razvan V. Marinescu; Arman Eshaghi; Marco Lorenzi; Alexandra L. Young; Neil P. Oxtoby; Sara Garbarino; Timothy J. Shakespeare; Sebastian J. Crutch; Daniel C. Alexander (IPMI, 2017)

Detecting and Classifying Nuclei on a Budget. - Joseph G. Jacobs; Gabriel J. Brostow; Alex Freeman; Daniel C. Alexander; Eleftheria Panagiotaki (CVII-STENT/LABELS@MICCAI, 2017)

Bayesian Image Quality Transfer with CNNs: Exploring Uncertainty in dMRI Super-Resolution. - Ryutaro Tanno; Daniel E. Worrall; Aurobrata Ghosh; Enrico Kaden; Stamatios N. Sotiropoulos; Antonio Criminisi; Daniel C. Alexander (MICCAI (1), 2017)

ESCAPE - Echo SCraper and ClAssifier of PErsons: A novel tool to facilitate using voice-controlled devices for research. - Nicholas C. Firth; Emma Harding; Mary Pat Sullivan; Sebastian J. Crutch; Daniel C. Alexander (CoRR, 2017)

Image quality transfer and applications in diffusion MRI. - Daniel C. Alexander; Darko Zikic; Aurobrata Ghosh; Ryutaro Tanno; Viktor Wottschel; Jiaying Zhang 001; Enrico Kaden; Tim B. Dyrby; Stamatios N. Sotiropoulos; Hui Zhang 005; Antonio Criminisi (NeuroImage, 2017)

Improved tractography using asymmetric fibre orientation distributions. - Matteo Bastiani; Michiel Cottaar; Krikor Dikranian; Aurobrata Ghosh; Hui Zhang 005; Daniel C. Alexander; Tim E. J. Behrens; Saâd Jbabdi; Stamatios N. Sotiropoulos (NeuroImage, 2017)

Early development of structural networks and the impact of prematurity on brain connectivity. - Dafnis Batalle; Emer J. Hughes; Hui Zhang 005; Jacques-Donald Tournier; Nora Tusor; Paul Aljabar; Luqman Wali; Daniel C. Alexander; Joseph V. Hajnal; Chiara Nosarti; A. David Edwards; Serena J. Counsell (NeuroImage, 2017)

Machine learning based compartment models with permeability for white matter microstructure imaging. - Gemma L. Nedjati-Gilani; Torben Schneider; Matt G. Hall; Niamh Cawley; Ioana Hill; Olga Ciccarelli; Ivana Drobnjak; Claudia A. M. Gandini Wheeler-Kingshott; Daniel C. Alexander (NeuroImage, 2017)

A tract-specific approach to assessing white matter in preterm infants. - Diliana Pecheva; Paul A. Yushkevich; Dafnis Batalle; Emer J. Hughes; Paul Aljabar; Julia Wurie; Joseph V. Hajnal; A. David Edwards; Daniel C. Alexander; Serena J. Counsell; Hui Zhang 005 (NeuroImage, 2017)

Deeper Image Quality Transfer: Training Low-Memory Neural Networks for 3D Images. - Stefano B. Blumberg; Ryutaro Tanno; Iasonas Kokkinos; Daniel C. Alexander (MICCAI (1), 2018)

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)

Modeling Alzheimer's disease progression using deep recurrent neural networks. - Minh Nguyen 002; Nanbo Sun; Daniel C. Alexander; Jiashi Feng; B. T. Thomas Yeo (PRNI, 2018)

Image processing and Quality Control for the first 10, 000 brain imaging datasets from UK Biobank. - Fidel Alfaro-Almagro; Mark Jenkinson; Neal K. Bangerter; Jesper L. R. Andersson; Ludovica Griffanti; Gwenaëlle Douaud; Stamatios N. Sotiropoulos; Saâd Jbabdi; Moisés Hernández-Fernández; Emmanuel Vallée; Diego Vidaurre; Matthew A. Webster; et al. (NeuroImage, 2018)

Using diffusion MRI to discriminate areas of cortical grey matter. - Tharindu Ganepola; Zoltán Nagy 003; Aurobrata Ghosh; Théodore Papadopoulo; Daniel C. Alexander; Martin I. Sereno (NeuroImage, 2018)

Accurate estimation of microscopic diffusion anisotropy and its time dependence in the mouse brain. - Andrada Ianus; Sune Nørhøj Jespersen; Teresa Serradas Duarte; Daniel C. Alexander; Ivana Drobnjak; Noam Shemesh (NeuroImage, 2018)

Microstructural imaging of the human brain with a 'super-scanner': 10 key advantages of ultra-strong gradients for diffusion MRI. - Derek K. Jones; Daniel C. Alexander; Richard Bowtell; Mara Cercignani; Flavio Dell'Acqua; Damien J. McHugh; Karla L. Miller; Marco Palombo; Geoffrey J. M. Parker; S. Umesh Rudrapatna; Chantal M. W. Tax (NeuroImage, 2018)

Neuroimage special issue on microstructure - Editorial. - Nikola Stikov; Daniel C. Alexander; G. Bruce Pike (NeuroImage, 2018)

Experimental studies of g-ratio MRI in ex vivo mouse brain. - Kathryn L. West; Nathaniel D. Kelm; Robert P. Carson; Daniel C. Alexander; Daniel F. Gochberg; Mark D. Does (NeuroImage, 2018)

Susceptibility of brain atrophy to TRIB3 in Alzheimer's disease, evidence from functional prioritization in imaging genetics. - Marco Lorenzi; André Altmann; Boris Gutman; Selina Wray; Charles Arber; Derrek P. Hibar; Neda Jahanshad; Jonathan M. Schott; Daniel C. Alexander; Paul M. Thompson; Sébastien Ourselin (Proc. Natl. Acad. Sci. USA, 2018)

Learning From Noisy Labels by Regularized Estimation of Annotator Confusion. - Ryutaro Tanno; Ardavan Saeedi; Swami Sankaranarayanan; Daniel C. Alexander; Nathan Silberman (CVPR, 2019)

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)

Adaptive Neural Trees. - Ryutaro Tanno; Kai Arulkumaran; Daniel C. Alexander; Antonio Criminisi; Aditya V. Nori (ICML, 2019)

Contextual Fibre Growth to Generate Realistic Axonal Packing for Diffusion MRI Simulation. - Ross Callaghan; Daniel C. Alexander; Hui Zhang 005; Marco Palombo (IPMI, 2019)

InSpect: INtegrated SPECTral Component Estimation and Mapping for Multi-contrast Microstructural MRI. - Paddy J. Slator; Jana Hutter; Razvan V. Marinescu; Marco Palombo; Alexandra L. Young; Laurence H. Jackson; Alison Ho; Lucy C. Chappell; Mary A. Rutherford; Joseph V. Hajnal; Daniel C. Alexander (IPMI, 2019)

Multi-stage Prediction Networks for Data Harmonization. - Stefano B. Blumberg; Marco Palombo; Can Son Khoo; Chantal M. W. Tax; Ryutaro Tanno; Daniel C. Alexander (MICCAI (4), 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)

Deep Learning for Low-Field to High-Field MR: Image Quality Transfer with Probabilistic Decimation Simulator. - Hongxiang Lin; Matteo Figini; Ryutaro Tanno; Stefano B. Blumberg; Enrico Kaden; Godwin Ogbole; Biobele J. Brown; Felice D'Arco; David W. Carmichael; Ikeoluwa Lagunju; Helen J. Cross; Delmiro Fernandez-Reyes; et al. (MLMIR@MICCAI, 2019)

BrainPainter: A Software for the Visualisation of Brain Structures, Biomarkers and Associated Pathological Processes. - Razvan V. Marinescu; Arman Eshaghi; Daniel C. Alexander; Polina Golland (MBIA/MFCA@MICCAI, 2019)

Disease Knowledge Transfer Across Neurodegenerative Diseases. - Razvan V. Marinescu; Marco Lorenzi; Stefano B. Blumberg; Alexandra L. Young; Pere Planell-Morell; Neil P. Oxtoby; Arman Eshaghi; Keir X. Yong; Sebastian J. Crutch; Polina Golland; Daniel C. Alexander (MICCAI (2), 2019)

TADPOLE Challenge: Accurate Alzheimer's Disease Prediction Through Crowdsourced Forecasting of Future Data. - Razvan V. Marinescu; Neil P. Oxtoby; Alexandra L. Young; Esther E. Bron; Arthur W. Toga; Michael W. Weiner; Frederik Barkhof; Nick C. Fox; Polina Golland; Stefan Klein 001; Daniel C. Alexander (PRIME@MICCAI, 2019)

Degenerative Adversarial NeuroImage Nets: Generating Images that Mimic Disease Progression. - Daniele Ravì; Daniel C. Alexander; Neil P. Oxtoby (MICCAI (3), 2019)

Disease Knowledge Transfer across Neurodegenerative Diseases. - Razvan V. Marinescu; Marco Lorenzi; Stefano B. Blumberg; Alexandra L. Young; Pere P. Morell; Neil P. Oxtoby; Arman Eshaghi; Keir X. Yong; Sebastian J. Crutch; Daniel C. Alexander (CoRR, 2019)

BrainPainter: A software for the visualisation of brain structures, biomarkers and associated pathological processes. - Razvan V. Marinescu; Daniel C. Alexander; Polina Golland (CoRR, 2019)

Uncertainty Quantification in Deep Learning for Safer Neuroimage Enhancement. - Ryutaro Tanno; Daniel E. Worrall; Enrico Kaden; Aurobrata Ghosh; Francesco Grussu; Alberto Bizzi; Stamatios N. Sotiropoulos; Antonio Criminisi; Daniel C. Alexander (CoRR, 2019)

Degenerative Adversarial NeuroImage Nets for 3D Simulations: Application in Longitudinal MRI. - Daniele Ravì; Stefano B. Blumberg; Daniel C. Alexander; Neil P. Oxtoby (CoRR, 2019)

Different patterns of cortical maturation before and after 38 weeks gestational age demonstrated by diffusion MRI in vivo. - Dafnis Batalle; Jonathan O'Muircheartaigh; Antonios Makropoulos; Christopher J. Kelly; Ralica Dimitrova; Emer J. Hughes; Joseph V. Hajnal; Hui Zhang 005; Daniel C. Alexander; A. David Edwards; Serena J. Counsell (NeuroImage, 2019)

Probabilistic disease progression modeling to characterize diagnostic uncertainty: Application to staging and prediction in Alzheimer's disease. - Marco Lorenzi; Maurizio Filippone; Giovanni B. Frisoni; Daniel C. Alexander; Sébastien Ourselin (NeuroImage, 2019)

DIVE: A spatiotemporal progression model of brain pathology in neurodegenerative disorders. - Razvan V. Marinescu; Arman Eshaghi; Marco Lorenzi; Alexandra L. Young; Neil P. Oxtoby; Sara Garbarino; Sebastian J. Crutch; Daniel C. Alexander (NeuroImage, 2019)

A generative model of realistic brain cells with application to numerical simulation of the diffusion-weighted MR signal. - Marco Palombo; Daniel C. Alexander; Hui Zhang 005 (NeuroImage, 2019)

Cross-scanner and cross-protocol diffusion MRI data harmonisation: A benchmark database and evaluation of algorithms. - Chantal M. W. Tax; Francesco Grussu; Enrico Kaden; Lipeng Ning; S. Umesh Rudrapatna; C. John Evans; Samuel St-Jean; Alexander Leemans; Simon Koppers; Dorit Merhof; Aurobrata Ghosh; Ryutaro Tanno; et al. (NeuroImage, 2019)

Learning To Pay Attention To Mistakes. - Moucheng Xu; Neil Oxtoby; Daniel C. Alexander; Joseph Jacob (BMVC, 2020)

Foveation for Segmentation of Mega-Pixel Histology Images. - Chen Jin; Ryutaro Tanno; Moucheng Xu; Thomy Mertzanidou; Daniel C. Alexander (MICCAI (5), 2020)

Data-Driven Multi-contrast Spectral Microstructure Imaging with InSpect. - Paddy J. Slator; Jana Hutter; Razvan V. Marinescu; Marco Palombo; Laurence H. Jackson; Alison Ho; Lucy C. Chappell; Mary A. Rutherford; Joseph V. Hajnal; Daniel C. Alexander (MICCAI (6), 2020)

Learning to Segment When Experts Disagree. - Le Zhang 005; Ryutaro Tanno; Kevin Bronik; Chen Jin; Parashkev Nachev; Frederik Barkhof; Olga Ciccarelli; Daniel C. Alexander (MICCAI (1), 2020)

Using Unsupervised Learning to Identify Clinical Subtypes of Alzheimer's Disease in Electronic Health Records. - Nonie Alexander; Daniel C. Alexander; Frederik Barkhof; Spiros C. Denaxas (MIE, 2020)

Trajectories of Disease Accumulation Using Electronic Health Records. - Pere Planell-Morell; Madhavi Bajekal; Spiros C. Denaxas; Rosalind Raine; Daniel C. Alexander (MIE, 2020)

Disentangling Human Error from Ground Truth in Segmentation of Medical Images. - Le Zhang 005; Ryutaro Tanno; Moucheng Xu; Chen Jin; Joseph Jacob; Olga Cicarrelli; Frederik Barkhof; Daniel C. Alexander (NeurIPS, 2020)

Image Quality Transfer Enhances Contrast and Resolution of Low-Field Brain MRI in African Paediatric Epilepsy Patients. - Matteo Figini; Hongxiang Lin; Godwin Ogbole; Felice D'Arco; Stefano B. Blumberg; David W. Carmichael; Ryutaro Tanno; Enrico Kaden; Biobele J. Brown; Ikeoluwa Lagunju; Helen J. Cross; Delmiro Fernandez-Reyes; et al. (CoRR, 2020)

Foveation for Segmentation of Ultra-High Resolution Images. - Chen Jin; Ryutaro Tanno; Moucheng Xu; Thomy Mertzanidou; Daniel C. Alexander (CoRR, 2020)

Disentangling Human Error from the Ground Truth in Segmentation of Medical Images. - Le Zhang 005; Ryutaro Tanno; Mou-Cheng Xu; Chen Jin; Joseph Jacob; Olga Ciccarelli; Frederik Barkhof; Daniel C. Alexander (CoRR, 2020)

Learning transition times in event sequences: the Event-Based Hidden Markov Model of disease progression. - Peter A. Wijeratne; Daniel C. Alexander (CoRR, 2020)

Joint super-resolution and synthesis of 1 mm isotropic MP-RAGE volumes from clinical MRI exams with scans of different orientation, resolution and contrast. - Juan Eugenio Iglesias; Benjamin Billot; Yaël Balbastre; Azadeh Tabari; John Conklin; Daniel C. Alexander; Polina Golland; Brian L. Edlow; Bruce Fischl (CoRR, 2020)

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

ConFiG: Contextual Fibre Growth to generate realistic axonal packing for diffusion MRI simulation. - Ross Callaghan; Daniel C. Alexander; Marco Palombo; Hui Zhang 005 (NeuroImage, 2020)

Multi-parametric quantitative in vivo spinal cord MRI with unified signal readout and image denoising. - Francesco Grussu; Marco Battiston; Jelle Veraart; Torben Schneider; Julien Cohen-Adad; Timothy M. Shepherd; Daniel C. Alexander; Els Fieremans; Dmitry S. Novikov; Claudia A. M. Gandini Wheeler-Kingshott (NeuroImage, 2020)

Predicting Alzheimer's disease progression using deep recurrent neural networks. - Minh Nguyen 002; Tong He; Lijun An; Daniel C. Alexander; Jiashi Feng; B. T. Thomas Yeo (NeuroImage, 2020)

Cross-scanner and cross-protocol multi-shell diffusion MRI data harmonization: Algorithms and results. - Lipeng Ning; Elisenda Bonet-Carne; Francesco Grussu; Farshid Sepehrband; Enrico Kaden; Jelle Veraart; Stefano B. Blumberg; Can Son Khoo; Marco Palombo; Iasonas Kokkinos; Daniel C. Alexander; Jaume Coll-Font; et al. (NeuroImage, 2020)

SANDI: A compartment-based model for non-invasive apparent soma and neurite imaging by diffusion MRI. - Marco Palombo; Andrada Ianus; Michele Guerreri; Daniel Nunes; Daniel C. Alexander; Noam Shemesh; Hui Zhang 005 (NeuroImage, 2020)

Augmenting Dementia Cognitive Assessment With Instruction-Less Eye-Tracking Tests. - Kyriaki Mengoudi; Daniele Ravì; Keir X. X. Yong; Silvia Primativo; Ivanna M. Pavisic; Emilie Brotherhood; Kirsty Lu; Jonathan M. Schott; Sebastian J. Crutch; Daniel C. Alexander (IEEE J. Biomed. Health Informatics, 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)

AGCN: Adversarial Graph Convolutional Network for 3D Point Cloud Segmentation. - Seunghoi Kim; Daniel C. Alexander (BMVC, 2021)

Three-dimensional tumour microenvironment reconstruction and tumour-immune interactions' analysis. - Panagiotis Barmpoutis; Hamzeh Kayhanian; William Waddingham; Daniel C. Alexander; Marnix Jansen (DICTA, 2021)

Learning Transition Times in Event Sequences: The Temporal Event-Based Model of Disease Progression. - Peter A. Wijeratne; Daniel C. Alexander (IPMI, 2021)

Generalised Super Resolution for Quantitative MRI Using Self-supervised Mixture of Experts. - Hongxiang Lin; Yukun Zhou; Paddy J. Slator; Daniel C. Alexander (MICCAI (6), 2021)

Learning to Address Intra-segment Misclassification in Retinal Imaging. - Yukun Zhou; Moucheng Xu; Yipeng Hu; Hongxiang Lin; Joseph Jacob; Pearse A. Keane; Daniel C. Alexander (MICCAI (1), 2021)

A Computationally Efficient Approach to Segmentation of the Aorta and Coronary Arteries Using Deep Learning. - Wing Keung Cheung; Robert Bell; Arjun Nair; Leon J. Menezes; Riyaz Patel; Simon Wan; Kacy Chou; Jiahang Chen; Ryo Torii; Rhodri H. Davies; James C. Moon; Daniel C. Alexander; et al. (IEEE Access, 2021)

MisMatch: Learning to Change Predictive Confidences with Attention for Consistency-Based, Semi-Supervised Medical Image Segmentation. - Mou-Cheng Xu; Yukun Zhou; Chen Jin; Stefano B. Blumberg; Frederick J. Wilson; Marius de Groot; Neil P. Oxtoby; Daniel C. Alexander; Joseph Jacob (CoRR, 2021)

Evaluation of automated airway morphological quantification for assessing fibrosing lung disease. - Ashkan Pakzad; Wing Keung Cheung; Kin Quan; Nesrin Mogulkoc; Coline H. M. Van Moorsel; Brian J. Bartholmai; Hendrik W. Van Es; Alper Ezircan; Frouke Van Beek; Marcel Veltkamp; Ronald A. Karwoski; Tobias Peikert; et al. (CoRR, 2021)

Inter-Cohort Validation of SuStaIn Model for Alzheimer's Disease. - Damiano Archetti; Alexandra L. Young; Neil P. Oxtoby; Daniel Ferreira 003; Gustav Mårtensson; Eric Westman; Daniel C. Alexander; Giovanni B. Frisoni; Alberto Redolfi (Frontiers Big Data, 2021)

A Multi-Study Model-Based Evaluation of the Sequence of Imaging and Clinical Biomarker Changes in Huntington's Disease. - Peter A. Wijeratne; Eileanoir B. Johnson; Sarah Gregory; Nellie Georgiou-Karistianis; Jane S. Paulsen; Rachael I. Scahill; Sarah J. Tabrizi; Daniel C. Alexander (Frontiers Big Data, 2021)

Ordinal SuStaIn: Subtype and Stage Inference for Clinical Scores, Visual Ratings, and Other Ordinal Data. - Alexandra L. Young; Jacob W. Vogel; Leon M. Aksman; Peter A. Wijeratne; Arman Eshaghi; Neil P. Oxtoby; Steven C. R. Williams; Daniel C. Alexander (Frontiers Artif. Intell., 2021)

Opportunities and Barriers for Adoption of a Decision-Support Tool for Alzheimer's Disease. - Maura Bellio; Dominic Furniss; Neil P. Oxtoby; Sara Garbarino; Nicholas C. Firth; Annemie Ribbens; Daniel C. Alexander; Ann Blandford (ACM Trans. Comput. Heal., 2021)

Data-Driven multi-Contrast spectral microstructure imaging with InSpect: INtegrated SPECTral component estimation and mapping. - Paddy J. Slator; Jana Hutter; Razvan V. Marinescu; Marco Palombo; Laurence H. Jackson; Alison Ho; Lucy C. Chappell; Mary A. Rutherford; Joseph V. Hajnal; Daniel C. Alexander (Medical Image Anal., 2021)

Identifying and evaluating clinical subtypes of Alzheimer's disease in care electronic health records using unsupervised machine learning. - Nonie Alexander; Daniel C. Alexander; Frederik Barkhof; Spiros C. Denaxas (BMC Medical Informatics Decis. Mak., 2021)

On the potential for mapping apparent neural soma density via a clinically viable diffusion MRI protocol. - Noemi G. Gyori; Christopher A. Clark; Daniel C. Alexander; Enrico Kaden (NeuroImage, 2021)

Machine learning based white matter models with permeability: An experimental study in cuprizone treated in-vivo mouse model of axonal demyelination. - Ioana Hill; Marco Palombo; Mathieu D. Santin; Francesca Branzoli; Anne-Charlotte Philippe; Demian Wassermann; Marie-Stephane Aigrot; Bruno Stankoff; Anne Baron-Van Evercooren; Mehdi Felfli; Dominique Langui; Hui Zhang 005; et al. (NeuroImage, 2021)

Mapping complex cell morphology in the grey matter with double diffusion encoding MR: A simulation study. - Andrada Ianus; Daniel C. Alexander; Hui Zhang 005; Marco Palombo (NeuroImage, 2021)

Joint super-resolution and synthesis of 1 mm isotropic MP-RAGE volumes from clinical MRI exams with scans of different orientation, resolution and contrast. - Juan Eugenio Iglesias; Benjamin Billot; Yaël Balbastre; Azadeh Tabari; John Conklin; R. Gilberto González; Daniel C. Alexander; Polina Golland; Brian L. Edlow; Bruce Fischl (NeuroImage, 2021)

On the generalizability of diffusion MRI signal representations across acquisition parameters, sequences and tissue types: Chronicles of the MEMENTO challenge. - Alberto De Luca; Andrada Ianus; Alexander Leemans; Marco Palombo; Noam Shemesh; Hui Zhang 005; Daniel C. Alexander; Markus Nilsson; Martijn Froeling; Geert Jan Biessels; Mauro Zucchelli; Matteo Frigo; et al. (NeuroImage, 2021)

Corrigendum to "SANDI: A compartment-based model for non-invasive apparent soma and neurite imaging by diffusion MRI" [Neuroimage 215 (2020), 116835]. - Marco Palombo; Andrada Ianus; Michele Guerreri; Daniel Nunes; Daniel C. Alexander; Noam Shemesh; Hui Zhang 005 (NeuroImage, 2021)

Uncertainty modelling in deep learning for safer neuroimage enhancement: Demonstration in diffusion MRI. - Ryutaro Tanno; Daniel E. Worrall; Enrico Kaden; Aurobrata Ghosh; Francesco Grussu; Alberto Bizzi; Stamatios N. Sotiropoulos; Antonio Criminisi; Daniel C. Alexander (NeuroImage, 2021)

Musclesense: a Trained, Artificial Neural Network for the Anatomical Segmentation of Lower Limb Magnetic Resonance Images in Neuromuscular Diseases. - Baris Kanber; Jasper M. Morrow; Uros Klickovic; Stephen J. Wastling; Sachit Shah; Pietro Fratta; Amy R. McDowell; Matt G. Hall; Chris A. Clark; Francesco Muntoni; Mary M. Reilly; Michael G. Hanna; et al. (Neuroinformatics, 2021)

pySuStaIn: A Python implementation of the Subtype and Stage Inference algorithm. - Leon M. Aksman; Peter A. Wijeratne; Neil P. Oxtoby; Arman Eshaghi; Cameron Shand; André Altmann; Daniel C. Alexander; Alexandra L. Young (SoftwareX, 2021)

Uncertainty-Aware Annotation Protocol to Evaluate Deformable Registration Algorithms. - Loïc Peter; Daniel C. Alexander; Caroline Magnain; Juan Eugenio Iglesias (IEEE Trans. Medical Imaging, 2021)

Gland segmentation in gastric histology images: detection of intestinal metaplasia. - Panagiotis Barmpoutis; William Waddingham; Christopher Ross; Hamzeh Kayhanian; Daniel C. Alexander; Marnix Jansen (EUSIPCO, 2022)

Learning to Downsample for Segmentation of Ultra-High Resolution Images. - Chen Jin; Ryutaro Tanno; Thomy Mertzanidou; Eleftheria Panagiotaki; Daniel C. Alexander (ICLR, 2022)

Optimising Chest X-Rays for Image Analysis by Identifying and Removing Confounding Factors. - Shahab Aslani; Watjana Lilaonitkul; Vaishnavi Gnanananthan; Divya Raj; Bojidar Rangelov; Alexandra L. Young; Yipeng Hu; Paul Taylor; Daniel C. Alexander; Joseph Jacob (MICAD, 2022)

Multi-scale Deformable Transformer for the Classification of Gastric Glands: The IMGL Dataset. - Panagiotis Barmpoutis; Jing Yuan; William Waddingham; Christopher Ross; Hamzeh Kayhanian; Tania Stathaki; Daniel C. Alexander; Marnix Jansen (CaPTion@MICCAI, 2022)

Progressive Subsampling for Oversampled Data - Application to Quantitative MRI. - Stefano B. Blumberg; Hongxiang Lin; Francesco Grussu; Yukun Zhou; Matteo Figini; Daniel C. Alexander (MICCAI (6), 2022)

Fitting a Directional Microstructure Model to Diffusion-Relaxation MRI Data with Self-supervised Machine Learning. - Jason P. Lim; Stefano B. Blumberg; Neil Narayan; Sean C. Epstein; Daniel C. Alexander; Marco Palombo; Paddy J. Slator (CDMRI@MICCAI, 2022)

Bayesian Pseudo Labels: Expectation Maximization for Robust and Efficient Semi-supervised Segmentation. - Mou-Cheng Xu; Yukun Zhou; Chen Jin; Marius de Groot; Daniel C. Alexander; Neil P. Oxtoby; Yipeng Hu; Joseph Jacob (MICCAI (5), 2022)

Prognostic Imaging Biomarker Discovery in Survival Analysis for Idiopathic Pulmonary Fibrosis. - An Zhao; Ahmed H. Shahin; Yukun Zhou; Eyjolfur Gudmundsson; Adam Szmul; Nesrin Mogulkoc; Frouke Van Beek; Christopher Brereton; Hendrik W. Van Es; Katarina Pontoppidan; Recep Savas; Timothy Wallis; et al. (MICCAI (8), 2022)

Survival Analysis for Idiopathic Pulmonary Fibrosis using CT Images and Incomplete Clinical Data. - Ahmed H. Shahin; Joseph Jacob; Daniel C. Alexander; David Barber (MIDL, 2022)

Learning Morphological Feature Perturbations for Calibrated Semi-Supervised Segmentation. - Mou-Cheng Xu; Yukun Zhou; Chen Jin; Stefano B. Blumberg; Frederick J. Wilson; Marius de Groot; Daniel C. Alexander; Neil P. Oxtoby; Joseph Jacob (MIDL, 2022)

Deep Learning-Based Long Term Mortality Prediction in the National Lung Screening Trial. - Yaozhi Lu; Shahab Aslani; Mark Emberton; Daniel C. Alexander; Joseph Jacob (IEEE Access, 2022)

VAFO-Loss: VAscular Feature Optimised Loss Function for Retinal Artery/Vein Segmentation. - Yukun Zhou; Moucheng Xu; Yipeng Hu; Stefano B. Blumberg; An Zhao; Siegfried K. Wagner; Pearse A. Keane; Daniel C. Alexander (CoRR, 2022)

Enhancing Cancer Prediction in Challenging Screen-Detected Incident Lung Nodules Using Time-Series Deep Learning. - Shahab Aslani; Pavan Alluri; Eyjolfur Gudmundsson; Edward Chandy; John McCabe; Anand Devaraj; Carolyn Horst; Sam M. Janes; Rahul Chakkara; Arjun Nair; Daniel C. Alexander; SUMMIT Consortium; et al. (CoRR, 2022)

An efficient semi-supervised quality control system trained using physics-based MRI-artefact generators and adversarial training. - Daniele Ravì; Frederik Barkhof; Daniel C. Alexander; Geoffrey J. M. Parker; Arman Eshaghi (CoRR, 2022)

An Experiment Design Paradigm using Joint Feature Selection and Task Optimization. - Stefano B. Blumberg; Hongxiang Lin; Yukun Zhou; Paddy Slator; Daniel C. Alexander (CoRR, 2022)

Deformably-Scaled Transposed Convolution. - Stefano B. Blumberg; Daniele Ravì; Mou-Cheng Xu; Matteo Figini; Iasonas Kokkinos; Daniel C. Alexander (CoRR, 2022)

Targeted Screening for Alzheimer's Disease Clinical Trials Using Data-Driven Disease Progression Models. - Neil P. Oxtoby; Cameron Shand; David M. Cash; Daniel C. Alexander; Frederik Barkhof (Frontiers Artif. Intell., 2022)

Deep active learning for suggestive segmentation of biomedical image stacks via optimisation of Dice scores and traced boundary length. - Alessia Atzeni; Loïc Peter; Eleanor D. Robinson; Emily Blackburn; Juri Althonayan; Daniel C. Alexander; Juan Eugenio Iglesias (Medical Image Anal., 2022)

Degenerative adversarial neuroimage nets for brain scan simulations: Application in ageing and dementia. - Daniele Ravì; Stefano B. Blumberg; Silvia Ingala; Frederik Barkhof; Daniel C. Alexander; Neil P. Oxtoby (Medical Image Anal., 2022)

Ten years of image analysis and machine learning competitions in dementia. - Esther E. Bron; Stefan Klein 001; Annika Reinke; Janne M. Papma; Lena Maier-Hein; Daniel C. Alexander; Neil P. Oxtoby (NeuroImage, 2022)

Subtype and Stage Inference with Timescales. - Alexandra L. Young; Leon M. Aksman; Daniel C. Alexander; Peter A. Wijeratne (IPMI, 2023)

A Coupled-Mechanisms Modelling Framework for Neurodegeneration. - Tiantian He 002; Elinor Thompson; Anna Schroder; Neil P. Oxtoby; Ahmed Abdulaal; Frederik Barkhof; Daniel C. Alexander (MICCAI (8), 2023)

Domain-Agnostic Segmentation of Thalamic Nuclei from Joint Structural and Diffusion MRI. - Henry F. J. Tregidgo; Sonja Soskic; Mark D. Olchanyi; Juri Althonayan; Benjamin Billot; Chiara Maffei; Polina Golland; Anastasia Yendiki; Daniel C. Alexander; Martina Bocchetta; Jonathan D. Rohrer; Juan Eugenio Iglesias (MICCAI (8), 2023)

DeepBrainPrint: A Novel Contrastive Framework for Brain MRI Re-Identification. - Lemuel Puglisi; Arman Eshaghi; Geoff J. M. Parker; Frederik Barkhof; Daniel C. Alexander; Daniele Ravì (MIDL, 2023)

A hybrid CNN-RNN approach for survival analysis in a Lung Cancer Screening study. - Yaozhi Lu; Shahab Aslani; An Zhao; Ahmed H. Shahin; David Barber; Mark Emberton; Daniel C. Alexander; Joseph Jacob (CoRR, 2023)

Expectation Maximization Pseudo Labelling for Segmentation with Limited Annotations. - Mou-Cheng Xu; Yukun Zhou; Chen Jin; Marius de Groot; Daniel C. Alexander; Neil P. Oxtoby; Yipeng Hu; Joseph Jacob (CoRR, 2023)

Rician likelihood loss for quantitative MRI using self-supervised deep learning. - Christopher S. Parker; Anna Schroder; Sean C. Epstein; James Cole; Daniel C. Alexander; Hui Zhang 005 (CoRR, 2023)

A data-centric deep learning approach to airway segmentation. - Wing Keung Cheung; Ashkan Pakzad; Nesrin Mogulkoc; Sarah Needleman; Bojidar Rangelov; Eyjolfur Gudmundsson; An Zhao; Mariam Abbas; Davina McLaverty; Dimitrios Asimakopoulos; Robert Chapman; Recep Savas; et al. (CoRR, 2023)

A 3D deep learning classifier and its explainability when assessing coronary artery disease. - Wing Keung Cheung; Jeremy Kalindjian; Robert Bell; Arjun Nair; Leon J. Menezes; Riyaz Patel; Simon Wan; Kacy Chou; Jiahang Chen; Ryo Torii; Rhodri H. Davies; James C. Moon; et al. (CoRR, 2023)

A 3D Conditional Diffusion Model for Image Quality Transfer - An Application to Low-Field MRI. - Seunghoi Kim; Henry F. J. Tregidgo; Ahmed Karam Eldaly; Matteo Figini; Daniel C. Alexander (CoRR, 2023)

Brain-ID: Learning Robust Feature Representations for Brain Imaging. - Peirong Liu; Oula Puonti; Xiaoling Hu 002; Daniel C. Alexander; Juan Eugenio Iglesias (CoRR, 2023)

Low-field magnetic resonance image enhancement via stochastic image quality transfer. - Hongxiang Lin; Matteo Figini; Felice D'Arco; Godwin Ogbole; Ryutaro Tanno; Stefano B. Blumberg; Lisa Ronan; Biobele J. Brown; David W. Carmichael; Ikeoluwa Lagunju; Judith Helen Cross; Delmiro Fernandez-Reyes; et al. (Medical Image Anal., 2023)

Patterns of inflammation, microstructural alterations, and sodium accumulation define multiple sclerosis subtypes after 15 years from onset. - Antonio Ricciardi; Francesco Grussu; Baris Kanber; Ferran Prados; Marios C. Yiannakas; Bhavana S. Solanky; Frank Riemer; Xavier Golay; Wallace Brownlee; Olga Ciccarelli; Daniel C. Alexander; Claudia A. M. Gandini Wheeler-Kingshott (Frontiers Neuroinformatics, 2023)

Transferability of Alzheimer's disease progression subtypes to an independent population cohort. - Hanyi Chen; Alexandra L. Young; Neil P. Oxtoby; Frederik Barkhof; Daniel C. Alexander; André Altmann (NeuroImage, 2023)

Learning from multiple annotators for medical image segmentation. - Le Zhang 005; Ryutaro Tanno; Moucheng Xu; Yawen Huang; Kevin Bronik; Chen Jin; Joseph Jacob; Yefeng Zheng 001; Ling Shao 001; Olga Ciccarelli; Frederik Barkhof; Daniel C. Alexander (Pattern Recognit., 2023)

Accurate Bayesian segmentation of thalamic nuclei using diffusion MRI and an improved histological atlas. - Henry F. J. Tregidgo; Sonja Soskic; Juri Althonayan; Chiara Maffei; Koen Van Leemput; Polina Golland; Ricardo Insausti; Garikoitz Lerma-Usabiaga; César Caballero-Gaudes; Pedro M. Paz-Alonso; Anastasia Yendiki; Daniel C. Alexander; et al. (NeuroImage, 2023)

MisMatch: Calibrated Segmentation via Consistency on Differential Morphological Feature Perturbations With Limited Labels. - Mou-Cheng Xu; Yukun Zhou; Chen Jin; Marius de Groot; Daniel C. Alexander; Neil P. Oxtoby; Joseph Jacob (IEEE Trans. Medical Imaging, 2023)

Tackling Structural Hallucination in Image Translation with Local Diffusion. - Seunghoi Kim; Chen Jin; Tom Diethe; Matteo Figini; Henry F. J. Tregidgo; Asher Mullokandov; Philip Teare; Daniel C. Alexander (ECCV (81), 2024)

Brain-ID: Learning Contrast-Agnostic Anatomical Representations for Brain Imaging. - Peirong Liu; Oula Puonti; Xiaoling Hu 002; Daniel C. Alexander; Juan Eugenio Iglesias (ECCV (12), 2024)

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)

Causal Modelling Agents: Causal Graph Discovery through Synergising Metadata- and Data-driven Reasoning. - Ahmed Abdulaal; Adamos Hadjivasiliou; Nina Montaña Brown; Tiantian He 002; Ayodeji Ijishakin; Ivana Drobnjak; Daniel C. Castro; Daniel C. Alexander (ICLR, 2024)

Experimental Design for Multi-Channel Imaging via Task-Driven Feature Selection. - Stefano B. Blumberg; Paddy J. Slator; Daniel C. Alexander (ICLR, 2024)

Spectral Transition Evaluation and Heatmap Extraction for Deep Learning Classifiers. - Mehran Azimbagirad; Pardeep Vasudev; Adam Szmul; John McCabe; Shahab Aslani; Niccolò McConnell; Brintha Selvarajah; Amyn Bhamani; Daniel C. Alexander; Joseph Jacob (MICAD, 2024)

Image Quality Transfer of Diffusion MRI Guided By High-Resolution Structural MRI. - Alp G. Cicimen; Henry F. J. Tregidgo; Matteo Figini; Eirini Messaritaki; Carolyn B. McNabb; Marco Palombo; C. John Evans; Mara Cercignani; Derek K. Jones; Daniel C. Alexander (CDMRI@MICCAI, 2024)

Enhancing Spatiotemporal Disease Progression Models via Latent Diffusion and Prior Knowledge. - Lemuel Puglisi; Daniel C. Alexander; Daniele Ravì (MICCAI (2), 2024)

Unscrambling disease progression at scale: fast inference of event permutations with optimal transport. - Peter A. Wijeratne; Daniel C. Alexander (NeurIPS, 2024)

Enhancing cancer prediction in challenging screen-detected incident lung nodules using time-series deep learning. - Shahab Aslani; Pavan Alluri; Eyjolfur Gudmundsson; Edward Chandy; John McCabe; Anand Devaraj; Carolyn Horst; Sam M. Janes; Rahul Chakkara; Daniel C. Alexander; Arjun Nair; Joseph Jacob (Comput. Medical Imaging Graph., 2024)

SCREENER: A general framework for task-specific experiment design in quantitative MRI. - Tianshu Zheng; Zican Wang; Timothy J. P. Bray; Daniel C. Alexander; Dan Wu; Hui Zhang 005 (CoRR, 2024)

An X-Ray Is Worth 15 Features: Sparse Autoencoders for Interpretable Radiology Report Generation. - Ahmed Abdulaal; Hugo Fry; Nina Montaña Brown; Ayodeji Ijishakin; Jack Gao; Stephanie L. Hyland; Daniel C. Alexander; Daniel C. Castro (CoRR, 2024)

Alternative Learning Paradigms for Image Quality Transfer. - Ahmed Karam Eldaly; Matteo Figini; Daniel C. Alexander (CoRR, 2024)

MRI Parameter Mapping via Gaussian Mixture VAE: Breaking the Assumption of Independent Pixels. - Moucheng Xu; Yukun Zhou; Tobias Goodwin-Allcock; Kimia Firoozabadi; Joseph Jacob; Daniel C. Alexander; Paddy J. Slator (CoRR, 2024)

Expectation maximisation pseudo labels. - Moucheng Xu; Yukun Zhou; Chen Jin; Marius de Groot; Daniel C. Alexander; Neil P. Oxtoby; Yipeng Hu; Joseph Jacob (Medical Image Anal., 2024)

CF-Loss: Clinically-relevant feature optimised loss function for retinal multi-class vessel segmentation and vascular feature measurement. - Yukun Zhou; Moucheng Xu; Yipeng Hu; Stefano B. Blumberg; An Zhao; Siegfried K. Wagner; Pearse A. Keane; Daniel C. Alexander (Medical Image Anal., 2024)

A flexible generative algorithm for growing in silico placentas. - Diana C. de Oliveira; Hani Cheikh Sleiman; Kelly Payette; Jana Hutter; Lisa Story; Joseph V. Hajnal; Daniel C. Alexander; Rebecca J. Shipley; Paddy J. Slator (PLoS Comput. Biol., 2024)

An efficient semi-supervised quality control system trained using physics-based MRI-artefact generators and adversarial training. - Daniele Ravì; Frederik Barkhof; Daniel C. Alexander; Lemuel Puglisi; Geoffrey J. M. Parker; Arman Eshaghi (Medical Image Anal., 2024)

CenTime: Event-conditional modelling of censoring in survival analysis. - Ahmed H. Shahin; An Zhao; Alexander C. Whitehead; Daniel C. Alexander; Joseph Jacob; David Barber (Medical Image Anal., 2024)

Evaluation of automated airway morphological quantification for assessing fibrosing lung disease. - Ashkan Pakzad; Wing Keung Cheung; Coline H. M. Van Moorsel; Kin Quan; Nesrin Mogulkoc; Brian J. Bartholmai; H. W. Van Es; Alper Ezircan; Frouke Van Beek; Marcel Veltkamp; Ronald A. Karwoski; T. Peikert; et al. (Comput. methods Biomech. Biomed. Eng. Imaging Vis., 2024)

Interpolation-split: a data-centric deep learning approach with big interpolated data to boost airway segmentation performance. - Wing Keung Cheung; Ashkan Pakzad; Nesrin Mogulkoc; Sarah Needleman; Bojidar Rangelov; Eyjolfur Gudmundsson; An Zhao; Mariam Abbas; Davina McLaverty; Dimitrios Asimakopoulos; Robert Chapman; Recep Savas; et al. (J. Big Data, 2024)

Balancing Act: Diversity and Consistency in Large Language Model Ensembles. - Ahmed Abdulaal; Chen Jin; Nina Montaña Brown; Aryo Pradipta Gema; Daniel C. Castro; Daniel C. Alexander; Philip Alexander Teare; Tom Diethe; Dino Oglic; Amrutha Saseendran (ICLR, 2025)

Brain Latent Progression: Individual-based spatiotemporal disease progression on 3D Brain MRIs via latent diffusion. - Lemuel Puglisi; Daniel C. Alexander; Daniele Ravì (Medical Image Anal., 2025)

An extragradient and noise-tuning adaptive iterative network for diffusion MRI-based microstructural estimation. - Tianshu Zheng; Chuyang Ye; Zhaopeng Cui; Hui Zhang 005; Daniel C. Alexander; Dan Wu (Medical Image Anal., 2025)

A large-scale multi-centre study characterising atrophy heterogeneity in Alzheimer's disease. - Vikram Venkatraghavan; Damiano Archetti; Pierrick Bourgeat; Chenyang Jiang; Mara ten Kate; Anna Catharina van Loenhoud; Rik Ossenkoppele; Charlotte E. Teunissen; Elsmarieke van de Giessen; Yolande A. L. Pijnenburg; Giovanni B. Frisoni; Béla Weiss; et al. (NeuroImage, 2025)

4D VQ-GAN: Synthesising Medical Scans at Any Time Point for Personalised Disease Progression Modelling of Idiopathic Pulmonary Fibrosis. - An Zhao; Moucheng Xu; Ahmed H. Shahin; Wim A. Wuyts; Mark G. Jones; Joseph Jacob; Daniel C. Alexander (CoRR, 2025)

Tackling Hallucination from Conditional Models for Medical Image Reconstruction with DynamicDPS. - Seunghoi Kim; Henry F. J. Tregidgo; Matteo Figini; Chen Jin; Sarang Joshi; Daniel C. Alexander (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)

A computationally frugal open-source foundation model for thoracic disease detection in lung cancer screening programs. - Niccolò McConnell; Pardeep Vasudev; Daisuke Yamada; Daryl Cheng; Mehran Azimbagirad; John McCabe; Shahab Aslani; Ahmed H. Shahin; Yukun Zhou; SUMMIT Consortium; André Altmann; Yipeng Hu; et al. (CoRR, 2025)

Analysis of Image-and-Text Uncertainty Propagation in Multimodal Large Language Models with Cardiac MR-Based Applications. - Yucheng Tang; Yunguan Fu; Weixi Yi; Yipei Wang; Daniel C. Alexander; Rhodri Davies; Yipeng Hu (CoRR, 2025)

A Stage-Aware Mixture of Experts Framework for Neurodegenerative Disease Progression Modelling. - Tiantian He 002; Keyue Jiang; An Zhao; Anna Schroder; Elinor Thompson; Sonja Soskic; Frederik Barkhof; Daniel C. Alexander (CoRR, 2025)

Impact of Clinical Image Quality on Efficient Foundation Model Finetuning. - Yucheng Tang; Pawel Rajwa; Alexander Ng; Yipei Wang; Wen Yan; Natasha Thorley; Aqua Asif; Clare Allen; Louise Dickinson; Francesco Giganti; Shonit Punwani; Daniel C. Alexander; et al. (CoRR, 2025)