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Sebastien Ourselin

King's College London

A Decoupled Uncertainty Model for MRI Segmentation Quality Estimation


Sep 06, 2021
Richard Shaw, Carole H. Sudre, Sebastien Ourselin, M. Jorge Cardoso, Hugh G. Pemberton

* Accepted for publication at the Journal of Machine Learning for Biomedical Imaging (MELBA) https://melba-journal.org. arXiv admin note: substantial text overlap with arXiv:2001.11927 

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Deep Learning Approach for Hyperspectral Image Demosaicking, Spectral Correction and High-resolution RGB Reconstruction


Sep 03, 2021
Peichao Li, Michael Ebner, Philip Noonan, Conor Horgan, Anisha Bahl, Sebastien Ourselin, Jonathan Shapey, Tom Vercauteren


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Label-set Loss Functions for Partial Supervision: Application to Fetal Brain 3D MRI Parcellation


Jul 08, 2021
Lucas Fidon, Michael Aertsen, Doaa Emam, Nada Mufti, Frederic Guffens, Thomas Deprest, Philippe Demaerel, Anna L. David, Andrew Melbourne, Sebastien Ourselin, Jam Deprest, Tom Vercauteren

* Accepted at MICCAI 2021 

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Autonomous Robotic Endoscope Control based on Semantically Rich Instructions


Jul 05, 2021
Caspar Gruijthuijsen, Luis C. Garcia-Peraza-Herrera, Gianni Borghesan, Dominiek Reynaerts, Jan Deprest, Sebastien Ourselin, Tom Vercauteren, Emmanuel Vander Poorten

* Caspar Gruijthuijsen and Luis C. Garcia-Peraza-Herrera contributed equally to this work 

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Inter Extreme Points Geodesics for Weakly Supervised Segmentation


Jul 01, 2021
Reuben Dorent, Samuel Joutard, Jonathan Shapey, Aaron Kujawa, Marc Modat, Sebastien Ourselin, Tom Vercauteren

* Early accept at MICCAI 2021 - code available at: https://github.com/ReubenDo/InExtremIS 

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Estimating MRI Image Quality via Image Reconstruction Uncertainty


Jun 21, 2021
Richard Shaw, Carole H. Sudre, Sebastien Ourselin, M. Jorge Cardoso


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Automated triaging of head MRI examinations using convolutional neural networks


Jun 15, 2021
David A. Wood, Sina Kafiabadi, Ayisha Al Busaidi, Emily Guilhem, Antanas Montvila, Siddharth Agarwal, Jeremy Lynch, Matthew Townend, Gareth Barker, Sebastien Ourselin, James H. Cole, Thomas C. Booth

* Accepted as an oral presentation at Medical Imaging with Deep Learning (MIDL) 2021 

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The Medical Segmentation Decathlon


Jun 10, 2021
Michela Antonelli, Annika Reinke, Spyridon Bakas, Keyvan Farahani, AnnetteKopp-Schneider, Bennett A. Landman, Geert Litjens, Bjoern Menze, Olaf Ronneberger, Ronald M. Summers, Bram van Ginneken, Michel Bilello, Patrick Bilic, Patrick F. Christ, Richard K. G. Do, Marc J. Gollub, Stephan H. Heckers, Henkjan Huisman, William R. Jarnagin, Maureen K. McHugo, Sandy Napel, Jennifer S. Goli Pernicka, Kawal Rhode, Catalina Tobon-Gomez, Eugene Vorontsov, Henkjan Huisman, James A. Meakin, Sebastien Ourselin, Manuel Wiesenfarth, Pablo Arbelaez, Byeonguk Bae, Sihong Chen, Laura Daza, Jianjiang Feng, Baochun He, Fabian Isensee, Yuanfeng Ji, Fucang Jia, Namkug Kim, Ildoo Kim, Dorit Merhof, Akshay Pai, Beomhee Park, Mathias Perslev, Ramin Rezaiifar, Oliver Rippel, Ignacio Sarasua, Wei Shen, Jaemin Son, Christian Wachinger, Liansheng Wang, Yan Wang, Yingda Xia, Daguang Xu, Zhanwei Xu, Yefeng Zheng, Amber L. Simpson, Lena Maier-Hein, M. Jorge Cardoso


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MIDeepSeg: Minimally Interactive Segmentation of Unseen Objects from Medical Images Using Deep Learning


Apr 25, 2021
Xiangde Luo, Guotai Wang, Tao Song, Jingyang Zhang, Michael Aertsen, Jan Deprest, Sebastien Ourselin, Tom Vercauteren, Shaoting Zhang

* 17 pages, 16 figures 

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Machine Learning and Glioblastoma: Treatment Response Monitoring Biomarkers in 2021


Apr 15, 2021
Thomas Booth, Bernice Akpinar, Andrei Roman, Haris Shuaib, Aysha Luis, Alysha Chelliah, Ayisha Al Busaidi, Ayesha Mirchandani, Burcu Alparslan, Nina Mansoor, Keyoumars Ashkan, Sebastien Ourselin, Marc Modat

* Kia S.M. et al. (eds) Machine Learning in Clinical Neuroimaging and Radiogenomics in Neuro-oncology. MLCN 2020, RNO-AI 2020. Lecture Notes in Computer Science, vol 12449 

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Unsupervised Brain Anomaly Detection and Segmentation with Transformers


Feb 23, 2021
Walter Hugo Lopez Pinaya, Petru-Daniel Tudosiu, Robert Gray, Geraint Rees, Parashkev Nachev, Sebastien Ourselin, M. Jorge Cardoso

* 22 pages, 9 figures, submitted to MIDL 2021, OpenReview https://openreview.net/forum?id=Z1tlNqbCpp_ 

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Intrapapillary Capillary Loop Classification in Magnification Endoscopy: Open Dataset and Baseline Methodology


Feb 19, 2021
Luis C. Garcia-Peraza-Herrera, Martin Everson, Laurence Lovat, Hsiu-Po Wang, Wen Lun Wang, Rehan Haidry, Danail Stoyanov, Sebastien Ourselin, Tom Vercauteren

* Accepted by IJCARS 

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Image Compositing for Segmentation of Surgical Tools without Manual Annotations


Feb 18, 2021
Luis C. Garcia-Peraza-Herrera, Lucas Fidon, Claudia D'Ettorre, Danail Stoyanov, Tom Vercauteren, Sebastien Ourselin

* Accepted by IEEE TMI 

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Scale factor point spread function matching: Beyond aliasing in image resampling


Jan 16, 2021
M. Jorge Cardoso, Marc Modat, Tom Vercauteren, Sebastien Ourselin

* Published in MICCAI 2015 

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Active Annotation of Informative Overlapping Frames in Video Mosaicking Applications


Dec 30, 2020
Loic Peter, Marcel Tella-Amo, Dzhoshkun Ismail Shakir, Jan Deprest, Sebastien Ourselin, Juan Eugenio Iglesias, Tom Vercauteren


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Generalized Wasserstein Dice Score, Distributionally Robust Deep Learning, and Ranger for brain tumor segmentation: BraTS 2020 challenge


Nov 03, 2020
Lucas Fidon, Sebastien Ourselin, Tom Vercauteren

* MICCAI 2020 BrainLes Workshop. Our method ranked fourth out of the 693 registered teams for the segmentation task of the BraTS 2020 challenge 

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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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Learning joint segmentation of tissues and brain lesions from task-specific hetero-modal domain-shifted datasets


Sep 08, 2020
Reuben Dorent, Thomas Booth, Wenqi Li, Carole H. Sudre, Sina Kafiabadi, Jorge Cardoso, Sebastien Ourselin, Tom Vercauteren

* MIDL 2019 special issue - Medical Image Analysis 

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Using convolution neural networks to learn enhanced fiber orientation distribution models from commercially available diffusion magnetic resonance imaging


Aug 12, 2020
Oeslle Lucena, Sjoerd B. Vos, Vejay Vakharia, John Duncan, Keyoumars Ashkan, Rachel Sparks, Sebastien Ourselin


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Deep Placental Vessel Segmentation for Fetoscopic Mosaicking


Jul 08, 2020
Sophia Bano, Francisco Vasconcelos, Luke M. Shepherd, Emmanuel Vander Poorten, Tom Vercauteren, Sebastien Ourselin, Anna L. David, Jan Deprest, Danail Stoyanov

* Accepted at MICCAI 2020 

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Scribble-based Domain Adaptation via Co-segmentation


Jul 07, 2020
Reuben Dorent, Samuel Joutard, Jonathan Shapey, Sotirios Bisdas, Neil Kitchen, Robert Bradford, Shakeel Saeed, Marc Modat, Sebastien Ourselin, Tom Vercauteren

* Accepted at MICCAI 2020 

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Uncertainty-Guided Efficient Interactive Refinement of Fetal Brain Segmentation from Stacks of MRI Slices


Jul 02, 2020
Guotai Wang, Michael Aertsen, Jan Deprest, Sebastien Ourselin, Tom Vercauteren, Shaoting Zhang

* 10 pages, 4 figures, Accepted by MICCAI 2020 

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Neuropsychiatric Disease Classification Using Functional Connectomics -- Results of the Connectomics in NeuroImaging Transfer Learning Challenge


Jun 05, 2020
Markus D. Schirmer, Archana Venkataraman, Islem Rekik, Minjeong Kim, Stewart Mostofsky, Mary Beth Nebel, Keri Rosch, Karen Seymour, Deana Crocetti, Hassna Irzan, Michael Hütel, Sebastien Ourselin, Neil Marlow, Andrew Melbourne, Egor Levchenko, Shuo Zhou, Mwiza Kunda, Haiping Lu, Nicha C. Dvornek, Juntang Zhuang, Gideon Pinto, Sandip Samal, Jorge L. Bernal-Rusiel, Rudolph Pienaar, Ai Wern Chung

* CNI-TLC was held in conjunction with MICCAI 2019 

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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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TorchIO: a Python library for efficient loading, preprocessing, augmentation and patch-based sampling of medical images in deep learning


Mar 09, 2020
Fernando Pérez-García, Rachel Sparks, Sebastien Ourselin

* 14 pages, 4 figures 

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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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SGD with Hardness Weighted Sampling for Distributionally Robust Deep Learning


Jan 08, 2020
Lucas Fidon, Sebastien Ourselin, Tom Vercauteren


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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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Improved MR to CT synthesis for PET/MR attenuation correction using Imitation Learning


Aug 27, 2019
Kerstin Kläser, Thomas Varsavsky, Pawel Markiewicz, Tom Vercauteren, David Atkinson, Kris Thielemans, Brian Hutton, M Jorge Cardoso, Sebastien Ourselin

* Aceppted at SASHIMI2019 

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