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HookNet: multi-resolution convolutional neural networks for semantic segmentation in histopathology whole-slide images

Jun 22, 2020
Mart van Rijthoven, Maschenka Balkenhol, Karina Siliņa, Jeroen van der Laak, Francesco Ciompi


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Extending Unsupervised Neural Image Compression With Supervised Multitask Learning

Apr 15, 2020
David Tellez, Diederik Hoppener, Cornelis Verhoef, Dirk Grunhagen, Pieter Nierop, Michal Drozdzal, Jeroen van der Laak, Francesco Ciompi

* Medical Imaging with Deep Learning 2020 (MIDL20) 

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Virtual staining for mitosis detection in Breast Histopathology

Mar 17, 2020
Caner Mercan, Germonda Reijnen-Mooij, David Tellez Martin, Johannes Lotz, Nick Weiss, Marcel van Gerven, Francesco Ciompi

* 5 pages, 4 figures. Accepted for publication at the IEEE International Symposium on Biomedical Imaging (ISBI), 2020 

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Needles in Haystacks: On Classifying Tiny Objects in Large Images

Aug 16, 2019
Nick Pawlowski, Suvrat Bhooshan, Nicolas Ballas, Francesco Ciompi, Ben Glocker, Michal Drozdzal


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Quantifying the effects of data augmentation and stain color normalization in convolutional neural networks for computational pathology

Feb 18, 2019
David Tellez, Geert Litjens, Peter Bandi, Wouter Bulten, John-Melle Bokhorst, Francesco Ciompi, Jeroen van der Laak


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Neural Image Compression for Gigapixel Histopathology Image Analysis

Nov 07, 2018
David Tellez, Geert Litjens, Jeroen van der Laak, Francesco Ciompi


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Whole-Slide Mitosis Detection in H&E Breast Histology Using PHH3 as a Reference to Train Distilled Stain-Invariant Convolutional Networks

Aug 17, 2018
David Tellez, Maschenka Balkenhol, Irene Otte-Holler, Rob van de Loo, Rob Vogels, Peter Bult, Carla Wauters, Willem Vreuls, Suzanne Mol, Nico Karssemeijer, Geert Litjens, Jeroen van der Laak, Francesco Ciompi

* Accepted to appear in IEEE Transactions on Medical Imaging 

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Predicting breast tumor proliferation from whole-slide images: the TUPAC16 challenge

Jul 22, 2018
Mitko Veta, Yujing J. Heng, Nikolas Stathonikos, Babak Ehteshami Bejnordi, Francisco Beca, Thomas Wollmann, Karl Rohr, Manan A. Shah, Dayong Wang, Mikael Rousson, Martin Hedlund, David Tellez, Francesco Ciompi, Erwan Zerhouni, David Lanyi, Matheus Viana, Vassili Kovalev, Vitali Liauchuk, Hady Ahmady Phoulady, Talha Qaiser, Simon Graham, Nasir Rajpoot, Erik Sjöblom, Jesper Molin, Kyunghyun Paeng, Sangheum Hwang, Sunggyun Park, Zhipeng Jia, Eric I-Chao Chang, Yan Xu, Andrew H. Beck, Paul J. van Diest, Josien P. W. Pluim

* Overview paper of the TUPAC16 challenge: http://tupac.tue-image.nl/ 

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A Survey on Deep Learning in Medical Image Analysis

Jun 04, 2017
Geert Litjens, Thijs Kooi, Babak Ehteshami Bejnordi, Arnaud Arindra Adiyoso Setio, Francesco Ciompi, Mohsen Ghafoorian, Jeroen A. W. M. van der Laak, Bram van Ginneken, Clara I. Sánchez

* Revised survey includes expanded discussion section and reworked introductory section on common deep architectures. Added missed papers from before Feb 1st 2017 

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Towards automatic pulmonary nodule management in lung cancer screening with deep learning

May 23, 2017
Francesco Ciompi, Kaman Chung, Sarah J. van Riel, Arnaud Arindra Adiyoso Setio, Paul K. Gerke, Colin Jacobs, Ernst Th. Scholten, Cornelia Schaefer-Prokop, Mathilde M. W. Wille, Alfonso Marchiano, Ugo Pastorino, Mathias Prokop, Bram van Ginneken

* Sci. Rep. 7, 46479; (2017) 
* Published on Scientific Reports 

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The importance of stain normalization in colorectal tissue classification with convolutional networks

May 23, 2017
Francesco Ciompi, Oscar Geessink, Babak Ehteshami Bejnordi, Gabriel Silva de Souza, Alexi Baidoshvili, Geert Litjens, Bram van Ginneken, Iris Nagtegaal, Jeroen van der Laak

* Published in Proceedings of IEEE International Symposium on Biomedical Imaging (ISBI) 2017 

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Comparison of Different Methods for Tissue Segmentation in Histopathological Whole-Slide Images

Apr 03, 2017
Péter Bándi, Rob van de Loo, Milad Intezar, Daan Geijs, Francesco Ciompi, Bram van Ginneken, Jeroen van der Laak, Geert Litjens

* Accepted for poster presentation at the IEEE International Symposium on Biomedical Imaging (ISBI) 2017 

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