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Bjoern H. Menze

*: shared first/last authors

Semi-Implicit Neural Solver for Time-dependent Partial Differential Equations


Sep 03, 2021
Suprosanna Shit, Ivan Ezhov, Leon M├Ąchler, Abinav R., Jana Lipkova, Johannes C. Paetzold, Florian Kofler, Marie Piraud, Bjoern H. Menze


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Whole Brain Vessel Graphs: A Dataset and Benchmark for Graph Learning and Neuroscience (VesselGraph)


Aug 30, 2021
Johannes C. Paetzold, Julian McGinnis, Suprosanna Shit, Ivan Ezhov, Paul B├╝schl, Chinmay Prabhakar, Mihail I. Todorov, Anjany Sekuboyina, Georgios Kaissis, Ali Ert├╝rk, Stephan G├╝nnemann, Bjoern H. Menze


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Evaluating the Robustness of Self-Supervised Learning in Medical Imaging


May 14, 2021
Fernando Navarro, Christopher Watanabe, Suprosanna Shit, Anjany Sekuboyina, Jan C. Peeken, Stephanie E. Combs, Bjoern H. Menze


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METGAN: Generative Tumour Inpainting and Modality Synthesis in Light Sheet Microscopy


Apr 23, 2021
Izabela Horvath, Johannes C. Paetzold, Oliver Schoppe, Rami Al-Maskari, Ivan Ezhov, Suprosanna Shit, Hongwei Li, Ali Ertuerk, Bjoern H. Menze


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Are we using appropriate segmentation metrics? Identifying correlates of human expert perception for CNN training beyond rolling the DICE coefficient


Mar 10, 2021
Florian Kofler, Ivan Ezhov, Fabian Isensee, Fabian Balsiger, Christoph Berger, Maximilian Koerner, Johannes Paetzold, Hongwei Li, Suprosanna Shit, Richard McKinley, Spyridon Bakas, Claus Zimmer, Donna Ankerst, Jan Kirschke, Benedikt Wiestler, Bjoern H. Menze


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Cranial Implant Prediction using Low-Resolution 3D Shape Completion and High-Resolution 2D Refinement


Sep 27, 2020
Amirhossein Bayat, Suprosanna Shit, Adrian Kilian, J├╝rgen T. Liechtenstein, Jan S. Kirschke, Bjoern H. Menze


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Robustification of Segmentation Models Against Adversarial Perturbations In Medical Imaging


Sep 23, 2020
Hanwool Park, Amirhossein Bayat, Mohammad Sabokrou, Jan S. Kirschke, Bjoern H. Menze


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Grading Loss: A Fracture Grade-based Metric Loss for Vertebral Fracture Detection


Aug 18, 2020
Malek Husseini, Anjany Sekuboyina, Maximilian Loeffler, Fernando Navarro, Bjoern H. Menze, Jan S. Kirschke

* To be presented at MICCAI 2020 

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Inferring the 3D Standing Spine Posture from 2D Radiographs


Jul 13, 2020
Amirhossein Bayat, Anjany Sekuboyina, Johannes C. Paetzold, Christian Payer, Darko Stern, Martin Urschler, Jan S. Kirschke, Bjoern H. Menze


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Deep Reinforcement Learning for Organ Localization in CT


May 11, 2020
Fernando Navarro, Anjany Sekuboyina, Diana Waldmannstetter, Jan C. Peeken, Stephanie E. Combs, Bjoern H. Menze

* https://openreview.net/forum?id=0vDeD2UD0S&referrer=%5BAuthor%20Console%5D(%2Fgroup%3Fid%3DMIDL.io%2F2020%2FConference%2FAuthors%23your-submissions) 
* Accepted paper in MIDL 2020 

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clDice -- a Topology-Preserving Loss Function for Tubular Structure Segmentation


Mar 29, 2020
Suprosanna Shit, Johannes C. Paetzold, Anjany Sekuboyina, Andrey Zhylka, Ivan Ezhov, Alexander Unger, Josien P. W. Pluim, Giles Tetteh, Bjoern H. Menze

* * The authors Suprosanna Shit and Johannes C. Paetzold contributed equally to the work 

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Probabilistic Point Cloud Reconstructions for Vertebral Shape Analysis


Aug 02, 2019
Anjany Sekuboyina, Markus Rempfler, Alexander Valentinitsch, Maximilian Loeffler, Jan S. Kirschke, Bjoern H. Menze

* Accepted at Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2019; JSK and BHM are joint supervising authors 

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Adversarially Learning a Local Anatomical Prior: Vertebrae Labelling with 2D reformations


Mar 03, 2019
Anjany Sekuboyina, Markus Rempfler, Alexander Valentinitsch, Jan S. Kirschke, Bjoern H. Menze

* Work under progress 

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The Liver Tumor Segmentation Benchmark (LiTS)


Jan 13, 2019
Patrick Bilic, Patrick Ferdinand Christ, Eugene Vorontsov, Grzegorz Chlebus, Hao Chen, Qi Dou, Chi-Wing Fu, Xiao Han, Pheng-Ann Heng, J├╝rgen Hesser, Samuel Kadoury, Tomasz Konopczynski, Miao Le, Chunming Li, Xiaomeng Li, Jana Lipkov├á, John Lowengrub, Hans Meine, Jan Hendrik Moltz, Chris Pal, Marie Piraud, Xiaojuan Qi, Jin Qi, Markus Rempfler, Karsten Roth, Andrea Schenk, Anjany Sekuboyina, Eugene Vorontsov, Ping Zhou, Christian H├╝lsemeyer, Marcel Beetz, Florian Ettlinger, Felix Gruen, Georgios Kaissis, Fabian Loh├Âfer, Rickmer Braren, Julian Holch, Felix Hofmann, Wieland Sommer, Volker Heinemann, Colin Jacobs, Gabriel Efrain Humpire Mamani, Bram van Ginneken, Gabriel Chartrand, An Tang, Michal Drozdzal, Avi Ben-Cohen, Eyal Klang, Marianne M. Amitai, Eli Konen, Hayit Greenspan, Johan Moreau, Alexandre Hostettler, Luc Soler, Refael Vivanti, Adi Szeskin, Naama Lev-Cohain, Jacob Sosna, Leo Joskowicz, Bjoern H. Menze

* conference 

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Hierarchical multi-class segmentation of glioma images using networks with multi-level activation function


Nov 02, 2018
Xiaobin Hu, Hongwei Li, Yu Zhao, Chao Dong, Bjoern H. Menze, Marie Piraud

* 12pages first version 

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Multi-level Activation for Segmentation of Hierarchically-nested Classes


Aug 21, 2018
Marie Piraud, Anjany Sekuboyina, Bjoern H. Menze

* Accepted for the BioImage Computing 2018 workshop, ECCV conference 

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Direct Estimation of Pharmacokinetic Parameters from DCE-MRI using Deep CNN with Forward Physical Model Loss


Jun 12, 2018
Cagdas Ulas, Giles Tetteh, Michael J. Thrippleton, Paul A. Armitage, Stephen D. Makin, Joanna M. Wardlaw, Mike E. Davies, Bjoern H. Menze

* Accepted at MICCAI 2018. 9 pages, 6 figures 

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DeepASL: Kinetic Model Incorporated Loss for Denoising Arterial Spin Labeled MRI via Deep Residual Learning


Jun 12, 2018
Cagdas Ulas, Giles Tetteh, Stephan Kaczmarz, Christine Preibisch, Bjoern H. Menze

* Accepted at MICCAI 2018. 9 pages, 4 figures, 1 table 

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Is the winner really the best? A critical analysis of common research practice in biomedical image analysis competitions


Jun 06, 2018
Lena Maier-Hein*, Matthias Eisenmann*, Annika Reinke, Sinan Onogur, Marko Stankovic, Patrick Scholz, Tal Arbel, Hrvoje Bogunovic, Andrew P. Bradley, Aaron Carass, Carolin Feldmann, Alejandro F. Frangi, Peter M. Full, Bram van Ginneken, Allan Hanbury, Katrin Honauer, Michal Kozubek, Bennett A. Landman, Keno M├Ąrz, Oskar Maier, Klaus Maier-Hein, Bjoern H. Menze, Henning M├╝ller, Peter F. Neher, Wiro Niessen, Nasir Rajpoot, Gregory C. Sharp, Korsuk Sirinukunwattana, Stefanie Speidel, Christian Stock, Danail Stoyanov, Abdel Aziz Taha, Fons van der Sommen, Ching-Wei Wang, Marc-Andr├ę Weber, Guoyan Zheng, Pierre Jannin*, Annette Kopp-Schneider*

* 48 pages, under review in Nature Methods 

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Btrfly Net: Vertebrae Labelling with Energy-based Adversarial Learning of Local Spine Prior


Apr 04, 2018
Anjany Sekuboyina, Markus Rempfler, Jan Kuka─Źka, Giles Tetteh, Alexander Valentinitsch, Jan S. Kirschke, Bjoern H. Menze


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DeepVesselNet: Vessel Segmentation, Centerline Prediction, and Bifurcation Detection in 3-D Angiographic Volumes


Mar 25, 2018
Giles Tetteh, Velizar Efremov, Nils D. Forkert, Matthias Schneider, Jan Kirschke, Bruno Weber, Claus Zimmer, Marie Piraud, Bjoern H. Menze


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Efficient Algorithms for Moral Lineage Tracing


Aug 25, 2017
Markus Rempfler, Jan-Hendrik Lange, Florian Jug, Corinna Blasse, Eugene W. Myers, Bjoern H. Menze, Bjoern Andres

* Accepted at ICCV 2017 

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Deep-FExt: Deep Feature Extraction for Vessel Segmentation and Centerline Prediction


Apr 12, 2017
Giles Tetteh, Markus Rempfler, Bjoern H. Menze, Claus Zimmer

* Wang Q., Shi Y., Suk HI., Suzuki K. (eds) Machine Learning in Medical Imaging. MLMI 2017. Lecture Notes in Computer Science, vol 10541. Springer, Cham 
* 9 pages 

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Automated Unsupervised Segmentation of Liver Lesions in CT scans via Cahn-Hilliard Phase Separation


Apr 07, 2017
Jana Lipková, Markus Rempfler, Patrick Christ, John Lowengrub, Bjoern H. Menze


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A Localisation-Segmentation Approach for Multi-label Annotation of Lumbar Vertebrae using Deep Nets


Mar 13, 2017
Anjany Sekuboyina, Alexander Valentinitsch, Jan S. Kirschke, Bjoern H. Menze


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Automatic Liver and Lesion Segmentation in CT Using Cascaded Fully Convolutional Neural Networks and 3D Conditional Random Fields


Oct 07, 2016
Patrick Ferdinand Christ, Mohamed Ezzeldin A. Elshaer, Florian Ettlinger, Sunil Tatavarty, Marc Bickel, Patrick Bilic, Markus Rempfler, Marco Armbruster, Felix Hofmann, Melvin D'Anastasi, Wieland H. Sommer, Seyed-Ahmad Ahmadi, Bjoern H. Menze

* Accepted at MICCAI 2016. Source code available on https://github.com/IBBM/Cascaded-FCN 

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