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Contrastive Learning of Single-Cell Phenotypic Representations for Treatment Classification


Mar 30, 2021
Alexis Perakis, Ali Gorji, Samriddhi Jain, Krishna Chaitanya, Simone Rizza, Ender Konukoglu

* 12 pages, 2 figures, 7 tables. This article is a pre-print and is currently under review at a conference 

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Constrained Optimization for Training Deep Neural Networks Under Class Imbalance


Feb 21, 2021
Sara Sangalli, Ertunc Erdil, Andreas Hoetker, Olivio Donati, Ender Konukoglu


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Exploring Cross-Image Pixel Contrast for Semantic Segmentation


Feb 11, 2021
Wenguan Wang, Tianfei Zhou, Fisher Yu, Jifeng Dai, Ender Konukoglu, Luc Van Gool

* Our code will be available at https://github.com/tfzhou/ContrastiveSeg 

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Hyperspectral Image Super-Resolution with Spectral Mixup and Heterogeneous Datasets


Jan 19, 2021
Ke Li, Dengxin Dai, Ender Konukoglu, Luc Van Gool

* 16 pages, 13 tables, 5 figures 

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Probabilistic 3D surface reconstruction from sparse MRI information


Oct 05, 2020
Katar铆na T贸thov谩, Sarah Parisot, Matthew Lee, Esther Puyol-Ant贸n, Andrew King, Marc Pollefeys, Ender Konukoglu

* MICCAI 2020 

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Sampling possible reconstructions of undersampled acquisitions in MR imaging


Sep 30, 2020
Kerem C. Tezcan, Christian F. Baumgartner, Ender Konukoglu

* Main article and appendix together. GIFs can be found on https://polybox.ethz.ch/index.php/s/3DPrRoYQnyzANAF 

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RevPHiSeg: A Memory-Efficient Neural Network for Uncertainty Quantification in Medical Image Segmentation


Aug 18, 2020
Marc Gantenbein, Ertunc Erdil, Ender Konukoglu

* Accepted to UNSURE by MICCAI 2020 

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Joint reconstruction and bias field correction for undersampled MR imaging


Jul 26, 2020
M茅lanie Gaillochet, Kerem C. Tezcan, Ender Konukoglu

* Published at MICCAI 2020, 10 pages 

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Semi-supervised Task-driven Data Augmentation for Medical Image Segmentation


Jul 09, 2020
Krishna Chaitanya, Neerav Karani, Christian F. Baumgartner, Anton Becker, Olivio Donati, Ender Konukoglu

* 13 pages, 11 Figures, 2 tables, under review at a conference 

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Modelling the Distribution of 3D Brain MRI using a 2D Slice VAE


Jul 09, 2020
Anna Volokitin, Ertunc Erdil, Neerav Karani, Kerem Can Tezcan, Xiaoran Chen, Luc Van Gool, Ender Konukoglu

* accepted for publication at MICCAI 2020. Code available https://github.com/voanna/slices-to-3d-brain-vae/ 

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Unsupervised out-of-distribution detection using kernel density estimation


Jun 18, 2020
Ertunc Erdil, Krishna Chaitanya, Ender Konukoglu


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Contrastive learning of global and local features for medical image segmentation with limited annotations


Jun 18, 2020
Krishna Chaitanya, Ertunc Erdil, Neerav Karani, Ender Konukoglu

* 16 pages, 2 figures, 7 tables. This article is a pre-print and is currently under review at a conference 

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Unsupervised Lesion Detection via Image Restoration with a Normative Prior


Apr 30, 2020
Xiaoran Chen, Suhang You, Kerem Can Tezcan, Ender Konukoglu

* Extended version of 'Unsupervised Lesion Detection via Image Restoration with a Normative Prior' (MIDL2019) 

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Test-Time Adaptable Neural Networks for Robust Medical Image Segmentation


Apr 10, 2020
Neerav Karani, Krishna Chaitanya, Ender Konukoglu

* Pre-print (currently under review at a Journal) 

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Automated quantification of myocardial tissue characteristics from native T1 mapping using neural networks with Bayesian inference for uncertainty-based quality-control


Jan 31, 2020
Esther Puyol Anton, Bram Ruijsink, Christian F. Baumgartner, Matthew Sinclair, Ender Konukoglu, Reza Razavi, Andrew P. King


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Machine Learning with Multi-Site Imaging Data: An Empirical Study on the Impact of Scanner Effects


Oct 10, 2019
Ben Glocker, Robert Robinson, Daniel C. Castro, Qi Dou, Ender Konukoglu

* Presented at the Medical Imaging meets NeurIPS Workshop 2019 

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A Partially Reversible U-Net for Memory-Efficient Volumetric Image Segmentation


Jun 20, 2019
Robin Br眉gger, Christian F. Baumgartner, Ender Konukoglu

* Accepted to MICCAI 2019; Edit v2: Added reference to related work of Blumberg et al 

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PHiSeg: Capturing Uncertainty in Medical Image Segmentation


Jun 07, 2019
Christian F. Baumgartner, Kerem C. Tezcan, Krishna Chaitanya, Andreas M. H枚tker, Urs J. Muehlematter, Khoschy Schawkat, Anton S. Becker, Olivio Donati, Ender Konukoglu

* Accepted to MICCAI 2019 

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Semi-Supervised and Task-Driven Data Augmentation


Feb 28, 2019
Krishna Chaitanya, Neerav Karani, Christian Baumgartner, Olivio Donati, Anton Becker, Ender Konukoglu

* 13 pages, 3 figures, 1 table, This article has been accepted at the 26th international conference on Information Processing in Medical Imaging (IPMI) 2019 

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Adversarial Augmentation for Enhancing Classification of Mammography Images


Feb 20, 2019
Lukas Jendele, Ondrej Skopek, Anton S. Becker, Ender Konukoglu


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Injecting and removing malignant features in mammography with CycleGAN: Investigation of an automated adversarial attack using neural networks


Nov 19, 2018
Anton S. Becker, Lukas Jendele, Ondrej Skopek, Nicole Berger, Soleen Ghafoor, Magda Marcon, Ender Konukoglu

* To be presented at RSNA 2018 

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Morpho-MNIST: Quantitative Assessment and Diagnostics for Representation Learning


Sep 27, 2018
Daniel C. Castro, Jeremy Tan, Bernhard Kainz, Ender Konukoglu, Ben Glocker


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Uncertainty Quantification in CNN-Based Surface Prediction Using Shape Priors


Jul 30, 2018
Katar铆na T贸thov谩, Sarah Parisot, Matthew C. H. Lee, Esther Puyol-Ant贸n, Lisa M. Koch, Andrew P. King, Ender Konukoglu, Marc Pollefeys

* Accepted to ShapeMI MICCAI 2018: Workshop on Shape in Medical Imaging 

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Combining Heterogeneously Labeled Datasets For Training Segmentation Networks


Jul 24, 2018
Jana Kemnitz, Christian F. Baumgartner, Wolfgang Wirth, Felix Eckstein, Sebastian K. Eder, Ender Konukoglu

* Accepted for presentation at 9th International Conference on Machine Learning in Medical Imaging (MLMI 2018) 

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Iterative Interaction Training for Segmentation Editing Networks


Jul 23, 2018
Gustav Bredell, Christine Tanner, Ender Konukoglu

* 8 pages, 4 figures, To appear in the Proceedings of the 21. International Conference On Medical Image Computing & Computer Assisted Intervention, Machine Learning in Medical Imaging workshop, 16-20 September 2018, Granada, Spain 

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