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Test-time Unsupervised Domain Adaptation

Oct 05, 2020
Thomas Varsavsky, Mauricio Orbes-Arteaga, Carole H. Sudre, Mark S. Graham, Parashkev Nachev, M. Jorge Cardoso

* Accepted at MICCAI 2020 

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Hierarchical brain parcellation with uncertainty

Sep 16, 2020
Mark S. Graham, Carole H. Sudre, Thomas Varsavsky, Petru-Daniel Tudosiu, Parashkev Nachev, Sebastien Ourselin, M. Jorge Cardoso

* To be published in the MICCAI 2020 workshop: Uncertainty for Safe Utilization of Machine Learning in Medical Imaging 

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Combining multimodal information for Metal Artefact Reduction: An unsupervised deep learning framework

Apr 20, 2020
Marta B. M. Ranzini, Irme Groothuis, Kerstin Kläser, M. Jorge Cardoso, Johann Henckel, Sébastien Ourselin, Alister Hart, Marc Modat

* Accepted at IEEE International Symposium on Biomedical Imaging (ISBI) 2020 

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Automatic Right Ventricle Segmentation using Multi-Label Fusion in Cardiac MRI

Apr 05, 2020
Maria A. Zuluaga, M. Jorge Cardoso, Sébastien Ourselin

* Workshop on RV Segmentation Challenge in Cardiac MRI in conjunction with Medical Image Computing and Computer-Assisted Intervention 2012 

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The Future of Digital Health with Federated Learning

Mar 18, 2020
Nicola Rieke, Jonny Hancox, Wenqi Li, Fausto Milletari, Holger Roth, Shadi Albarqouni, Spyridon Bakas, Mathieu N. Galtier, Bennett Landman, Klaus Maier-Hein, Sebastien Ourselin, Micah Sheller, Ronald M. Summers, Andrew Trask, Daguang Xu, Maximilian Baust, M. Jorge Cardoso


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Neuromorphologicaly-preserving Volumetric data encoding using VQ-VAE

Feb 13, 2020
Petru-Daniel Tudosiu, Thomas Varsavsky, Richard Shaw, Mark Graham, Parashkev Nachev, Sebastien Ourselin, Carole H. Sudre, M. Jorge Cardoso


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A Heteroscedastic Uncertainty Model for Decoupling Sources of MRI Image Quality

Jan 31, 2020
Richard Shaw, Carole H. Sudre, Sebastien Ourselin, M. Jorge Cardoso


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On the Initialization of Long Short-Term Memory Networks

Dec 22, 2019
Mostafa Mehdipour Ghazi, Mads Nielsen, Akshay Pai, Marc Modat, M. Jorge Cardoso, Sebastien Ourselin, Lauge Sorensen


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Privacy-preserving Federated Brain Tumour Segmentation

Oct 02, 2019
Wenqi Li, Fausto Milletarì, Daguang Xu, Nicola Rieke, Jonny Hancox, Wentao Zhu, Maximilian Baust, Yan Cheng, Sébastien Ourselin, M. Jorge Cardoso, Andrew Feng

* MICCAI MLMI 2019 

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Multi-Domain Adaptation in Brain MRI through Paired Consistency and Adversarial Learning

Sep 17, 2019
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

* Accepted at 1st International Workshop on Domain Adaptation and Representation Transfer held at MICCAI 2019 

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Let's agree to disagree: learning highly debatable multirater labelling

Sep 04, 2019
Carole H. Sudre, Beatriz Gomez Anson, Silvia Ingala, Chris D. Lane, Daniel Jimenez, Lukas Haider, Thomas Varsavsky, Ryutaro Tanno, Lorna Smith, Sébastien Ourselin, Rolf H. Jäger, M. Jorge Cardoso

* Accepted at MICCAI 2019 

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Stochastic Filter Groups for Multi-Task CNNs: Learning Specialist and Generalist Convolution Kernels

Aug 26, 2019
Felix J. S. Bragman, Ryutaro Tanno, Sebastien Ourselin, Daniel C. Alexander, M. Jorge Cardoso

* Accepted for oral presentation at ICCV 2019 

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Robust parametric modeling of Alzheimer's disease progression

Aug 14, 2019
Mostafa Mehdipour Ghazi, Mads Nielsen, Akshay Pai, Marc Modat, M. Jorge Cardoso, Sébastien Ourselin, Lauge Sørensen


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As easy as 1, 2... 4? Uncertainty in counting tasks for medical imaging

Jul 25, 2019
Zach Eaton-Rosen, Thomas Varsavsky, Sebastien Ourselin, M. Jorge Cardoso

* Early Accept to MICCAI 2019 

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Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge

Apr 01, 2019
Hugo J. Kuijf, J. Matthijs Biesbroek, Jeroen de Bresser, Rutger Heinen, Simon Andermatt, Mariana Bento, Matt Berseth, Mikhail Belyaev, M. Jorge Cardoso, Adrià Casamitjana, D. Louis Collins, Mahsa Dadar, Achilleas Georgiou, Mohsen Ghafoorian, Dakai Jin, April Khademi, Jesse Knight, Hongwei Li, Xavier Lladó, Miguel Luna, Qaiser Mahmood, Richard McKinley, Alireza Mehrtash, Sébastien Ourselin, Bo-yong Park, Hyunjin Park, Sang Hyun Park, Simon Pezold, Elodie Puybareau, Leticia Rittner, Carole H. Sudre, Sergi Valverde, Verónica Vilaplana, Roland Wiest, Yongchao Xu, Ziyue Xu, Guodong Zeng, Jianguo Zhang, Guoyan Zheng, Christopher Chen, Wiesje van der Flier, Frederik Barkhof, Max A. Viergever, Geert Jan Biessels

* Accepted for publication in IEEE Transactions on Medical Imaging 

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Training recurrent neural networks robust to incomplete data: application to Alzheimer's disease progression modeling

Mar 17, 2019
Mostafa Mehdipour Ghazi, Mads Nielsen, Akshay Pai, M. Jorge Cardoso, Marc Modat, Sebastien Ourselin, Lauge Sørensen

* Medical Image Analysis, Volume 53, Pages 39-46, 2019 
* arXiv admin note: substantial text overlap with arXiv:1808.05500 

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A large annotated medical image dataset for the development and evaluation of segmentation algorithms

Feb 25, 2019
Amber L. Simpson, Michela Antonelli, Spyridon Bakas, Michel Bilello, Keyvan Farahani, Bram van Ginneken, Annette Kopp-Schneider, Bennett A. Landman, Geert Litjens, Bjoern Menze, Olaf Ronneberger, Ronald M. Summers, Patrick Bilic, Patrick F. Christ, Richard K. G. Do, Marc Gollub, Jennifer Golia-Pernicka, Stephan H. Heckers, William R. Jarnagin, Maureen K. McHugo, Sandy Napel, Eugene Vorontsov, Lena Maier-Hein, M. Jorge Cardoso


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3D multirater RCNN for multimodal multiclass detection and characterisation of extremely small objects

Dec 21, 2018
Carole H. Sudre, Beatriz Gomez Anson, Silvia Ingala, Chris D. Lane, Daniel Jimenez, Lukas Haider, Thomas Varsavsky, Lorna Smith, H. Rolf Jäger, M. Jorge Cardoso


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Elastic Registration of Geodesic Vascular Graphs

Sep 14, 2018
Stefano Moriconi, Maria A. Zuluaga, H. Rolf Jager, Parashkev Nachev, Sebastien Ourselin, M. Jorge Cardoso

* Medical Image Computing and Computer Assisted Intervention -- MICCAI 2018 

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Simultaneous synthesis of FLAIR and segmentation of white matter hypointensities from T1 MRIs

Aug 20, 2018
Mauricio Orbes-Arteaga, M. Jorge Cardoso, Lauge Sørensen, Marc Modat, Sébastien Ourselin, Mads Nielsen, Akshay Pai

* Conference on Medical Imaging with Deep Learning MIDL 2018 

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Robust training of recurrent neural networks to handle missing data for disease progression modeling

Aug 16, 2018
Mostafa Mehdipour Ghazi, Mads Nielsen, Akshay Pai, M. Jorge Cardoso, Marc Modat, Sebastien Ourselin, Lauge Sørensen

* 9 pages, 1 figure, MIDL conference 

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PIMMS: Permutation Invariant Multi-Modal Segmentation

Jul 17, 2018
Thomas Varsavsky, Zach Eaton-Rosen, Carole H. Sudre, Parashkev Nachev, M. Jorge Cardoso

* Accepted at the 4th Workshop on Deep Learning in Medical Image Analysis held at MICCAI2018 

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Towards safe deep learning: accurately quantifying biomarker uncertainty in neural network predictions

Jun 22, 2018
Zach Eaton-Rosen, Felix Bragman, Sotirios Bisdas, Sebastien Ourselin, M. Jorge Cardoso

* Accepted to MICCAI 2018 

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Uncertainty in multitask learning: joint representations for probabilistic MR-only radiotherapy planning

Jun 18, 2018
Felix J. S. Bragman, Ryutaro Tanno, Zach Eaton-Rosen, Wenqi Li, David J. Hawkes, Sebastien Ourselin, Daniel C. Alexander, Jamie R. McClelland, M. Jorge Cardoso

* Early-accept at MICCAI 2018, 8 pages, 4 figures 

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VTrails: Inferring Vessels with Geodesic Connectivity Trees

Jun 08, 2018
Stefano Moriconi, Maria A. Zuluaga, H. Rolf Jäger, Parashkev Nachev, Sébastien Ourselin, M. Jorge Cardoso

* IPMI 2017: Information Processing in Medical Imaging pp 672-684 

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An Adaptive Sampling Scheme to Efficiently Train Fully Convolutional Networks for Semantic Segmentation

Dec 22, 2017
Lorenz Berger, Eoin Hyde, M. Jorge Cardoso, Sebastien Ourselin


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NiftyNet: a deep-learning platform for medical imaging

Oct 16, 2017
Eli Gibson, Wenqi Li, Carole Sudre, Lucas Fidon, Dzhoshkun I. Shakir, Guotai Wang, Zach Eaton-Rosen, Robert Gray, Tom Doel, Yipeng Hu, Tom Whyntie, Parashkev Nachev, Marc Modat, Dean C. Barratt, Sébastien Ourselin, M. Jorge Cardoso, Tom Vercauteren

* Wenqi Li and Eli Gibson contributed equally to this work. M. Jorge Cardoso and Tom Vercauteren contributed equally to this work. 26 pages, 6 figures; Update includes additional applications, updated author list and formatting for journal submission 

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Generalised Dice overlap as a deep learning loss function for highly unbalanced segmentations

Jul 14, 2017
Carole H Sudre, Wenqi Li, Tom Vercauteren, Sébastien Ourselin, M. Jorge Cardoso


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On the Compactness, Efficiency, and Representation of 3D Convolutional Networks: Brain Parcellation as a Pretext Task

Jul 06, 2017
Wenqi Li, Guotai Wang, Lucas Fidon, Sebastien Ourselin, M. Jorge Cardoso, Tom Vercauteren

* Paper accepted at IPMI 2017 

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Generative diffeomorphic atlas construction from brain and spinal cord MRI data

Jul 05, 2017
Claudia Blaiotta, Patrick Freund, M. Jorge Cardoso, John Ashburner


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