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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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Distributionally Robust Segmentation of Abnormal Fetal Brain 3D MRI


Aug 09, 2021
Lucas Fidon, Michael Aertsen, Nada Mufti, Thomas Deprest, Doaa Emam, Frédéric Guffens, Ernst Schwartz, Michael Ebner, Daniela Prayer, Gregor Kasprian, Anna L. David, Andrew Melbourne, Sébastien Ourselin, Jan Deprest, Georg Langs, Tom Vercauteren

* Accepted at the MICCAI 2021 Perinatal, Preterm and Paediatric Image Analysis (PIPPI) workshop 

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


Jul 09, 2021
Lucas Fidon, Michael Aertsen, Doaa Emam, Nada Mufti, Frédéric Guffens, Thomas Deprest, Philippe Demaerel, Anna L. David, Andrew Melbourne, Sébastien Ourselin, Jan 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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A self-supervised learning strategy for postoperative brain cavity segmentation simulating resections


May 24, 2021
Fernando Pérez-García, Reuben Dorent, Michele Rizzi, Francesco Cardinale, Valerio Frazzini, Vincent Navarro, Caroline Essert, Irène Ollivier, Tom Vercauteren, Rachel Sparks, John S. Duncan, Sébastien Ourselin

* To be published in the International Journal of Computer Assisted Radiology and Surgery (IJCARS) - Special issue MICCAI 2020 

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Robust joint registration of multiple stains and MRI for multimodal 3D histology reconstruction: Application to the Allen human brain atlas


May 04, 2021
Adrià Casamitjana, Marco Lorenzi, Sebastiano Ferraris, Loc Peter, Marc Modat, Allison Stevens, Bruce Fischl, Tom Vercauteren, Juan Eugenio Iglesias


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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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Zero-shot super-resolution with a physically-motivated downsampling kernel for endomicroscopy


Mar 25, 2021
Agnieszka Barbara Szczotka, Dzhoshkun Ismail Shakir, Matthew J. Clarkson, Stephen P. Pereira, Tom Vercauteren

* IEEE Transactions on Medical Imaging, 2021 

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MONAIfbs: MONAI-based fetal brain MRI deep learning segmentation


Mar 21, 2021
Marta B. M. Ranzini, Lucas Fidon, Sébastien Ourselin, Marc Modat, Tom Vercauteren

* Abstract accepted at IEEE International Symposium on Biomedical Imaging (ISBI) 2021 

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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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Morphological Change Forecasting for Prostate Glands using Feature-based Registration and Kernel Density Extrapolation


Jan 16, 2021
Qianye Yang, Tom Vercauteren, Yunguan Fu, Francesco Giganti, Nooshin Ghavami, Vasilis Stavrinides, Caroline Moore, Matt Clarkson, Dean Barratt, Yipeng Hu

* Accepted by ISBI 2021 

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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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Explainable-by-design Semi-Supervised Representation Learning for COVID-19 Diagnosis from CT Imaging


Dec 02, 2020
Abel Díaz Berenguer, Hichem Sahli, Boris Joukovsky, Maryna Kvasnytsia, Ine Dirks, Mitchel Alioscha-Perez, Nikos Deligiannis, Panagiotis Gonidakis, Sebastián Amador Sánchez, Redona Brahimetaj, Evgenia Papavasileiou, Jonathan Cheung-Wai Chana, Fei Li, Shangzhen Song, Yixin Yang, Sofie Tilborghs, Siri Willems, Tom Eelbode, Jeroen Bertels, Dirk Vandermeulen, Frederik Maes, Paul Suetens, Lucas Fidon, Tom Vercauteren, David Robben, Arne Brys, Dirk Smeets, Bart Ilsen, Nico Buls, Nina Watté, Johan de Mey, Annemiek Snoeckx, Paul M. Parizel, Julien Guiot, Louis Deprez, Paul Meunier, Stefaan Gryspeerdt, Kristof De Smet, Bart Jansen, Jef Vandemeulebroucke


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DeepReg: a deep learning toolkit for medical image registration


Nov 04, 2020
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, Ester Bonmati, Daniel C. Alexander, Matthew J. Clarkson, Tom Vercauteren, Yipeng Hu

* Accepted in The Journal of Open Source Software (JOSS) 

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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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High-throughput molecular imaging via deep learning enabled Raman spectroscopy


Sep 28, 2020
Conor C. Horgan, Magnus Jensen, Anika Nagelkerke, Jean-Phillipe St-Pierre, Tom Vercauteren, Molly M. Stevens, Mads S. Bergholt


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CA-Net: Comprehensive Attention Convolutional Neural Networks for Explainable Medical Image Segmentation


Sep 23, 2020
Ran Gu, Guotai Wang, Tao Song, Rui Huang, Michael Aertsen, Jan Deprest, Sébastien Ourselin, Tom Vercauteren, Shaoting Zhang


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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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Real-Time Segmentation of Non-Rigid Surgical Tools based on Deep Learning and Tracking


Sep 07, 2020
Luis C. García-Peraza-Herrera, Wenqi Li, Caspar Gruijthuijsen, Alain Devreker, George Attilakos, Jan Deprest, Emmanuel Vander Poorten, Danail Stoyanov, Tom Vercauteren, Sébastien Ourselin

* Accepted in CARE Workshop, held in conjunction with MICCAI 2016 

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Longitudinal Image Registration with Temporal-order and Subject-specificity Discrimination


Aug 29, 2020
Qianye Yang, Yunguan Fu, Francesco Giganti, Nooshin Ghavami, Qingchao Chen, J. Alison Noble, Tom Vercauteren, Dean Barratt, Yipeng Hu

* Accepted at MICCAI 2020 

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Comparative study of deep learning methods for the automatic segmentation of lung, lesion and lesion type in CT scans of COVID-19 patients


Aug 21, 2020
Sofie Tilborghs, Ine Dirks, Lucas Fidon, Siri Willems, Tom Eelbode, Jeroen Bertels, Bart Ilsen, Arne Brys, Adriana Dubbeldam, Nico Buls, Panagiotis Gonidakis, Sebastián Amador Sánchez, Annemiek Snoeckx, Paul M. Parizel, Johan de Mey, Dirk Vandermeulen, Tom Vercauteren, David Robben, Dirk Smeets, Frederik Maes, Jef Vandemeulebroucke, Paul Suetens

* Updated acknowledgments 

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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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