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Bjoern Menze

Department of Informatics, Technical University of Munich, Germany

The RSNA-ASNR-MICCAI BraTS 2021 Benchmark on Brain Tumor Segmentation and Radiogenomic Classification


Jul 05, 2021
Ujjwal Baid, Satyam Ghodasara, Michel Bilello, Suyash Mohan, Evan Calabrese, Errol Colak, Keyvan Farahani, Jayashree Kalpathy-Cramer, Felipe C. Kitamura, Sarthak Pati, Luciano M. Prevedello, Jeffrey D. Rudie, Chiharu Sako, Russell T. Shinohara, Timothy Bergquist, Rong Chai, James Eddy, Julia Elliott, Walter Reade, Thomas Schaffter, Thomas Yu, Jiaxin Zheng, BraTS Annotators, Christos Davatzikos, John Mongan, Christopher Hess, Soonmee Cha, Javier Villanueva-Meyer, John B. Freymann, Justin S. Kirby, Benedikt Wiestler, Priscila Crivellaro, Rivka R. Colen, Aikaterini Kotrotsou, Daniel Marcus, Mikhail Milchenko, Arash Nazeri, Hassan Fathallah-Shaykh, Roland Wiest, Andras Jakab, Marc-Andre Weber, Abhishek Mahajan, Bjoern Menze, Adam E. Flanders, Spyridon Bakas

* 17 pages, 2 figures, 1 table 

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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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The Federated Tumor Segmentation (FeTS) Challenge


May 14, 2021
Sarthak Pati, Ujjwal Baid, Maximilian Zenk, Brandon Edwards, Micah Sheller, G. Anthony Reina, Patrick Foley, Alexey Gruzdev, Jason Martin, Shadi Albarqouni, Yong Chen, Russell Taki Shinohara, Annika Reinke, David Zimmerer, John B. Freymann, Justin S. Kirby, Christos Davatzikos, Rivka R. Colen, Aikaterini Kotrotsou, Daniel Marcus, Mikhail Milchenko, Arash Nazeri, Hassan Fathallah-Shaykh, Roland Wiest, Andras Jakab, Marc-Andre Weber, Abhishek Mahajan, Lena Maier-Hein, Jens Kleesiek, Bjoern Menze, Klaus Maier-Hein, Spyridon Bakas


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Common Limitations of Image Processing Metrics: A Picture Story


Apr 13, 2021
Annika Reinke, Matthias Eisenmann, Minu D. Tizabi, Carole H. Sudre, Tim Rädsch, Michela Antonelli, Tal Arbel, Spyridon Bakas, M. Jorge Cardoso, Veronika Cheplygina, Keyvan Farahani, Ben Glocker, Doreen Heckmann-Nötzel, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Jens Kleesiek, Tahsin Kurc, Michal Kozubek, Bennett A. Landman, Geert Litjens, Klaus Maier-Hein, Bjoern Menze, Henning Müller, Jens Petersen, Mauricio Reyes, Nicola Rieke, Bram Stieltjes, Ronald M. Summers, Sotirios A. Tsaftaris, Bram van Ginneken, Annette Kopp-Schneider, Paul Jäger, Lena Maier-Hein

* This is a dynamic paper on limitations of commonly used metrics. The current version discusses segmentation metrics only, while future versions will also include metrics for classification and detection. For missing use cases, comments or questions, please contact [email protected] or [email protected]. Substantial contributions to this document will be acknowledged with a co-authorship 

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$\textbf{MyoMapNet}$: Accelerated Modified Look-Locker Inversion Recovery Myocardial T1 Mapping via Neural Networks


Mar 31, 2021
Hossam El-Rewaidy, Rui Guo, Amanda Paskavitz, Tuyen Yankama, Long Ngo, Bjoern Menze, Reza Nezafat

* 34 pages, 10 figrues, 3 tables 

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Differentiable Deconvolution for Improved Stroke Perfusion Analysis


Mar 31, 2021
Ezequiel de la Rosa, David Robben, Diana M. Sima, Jan S. Kirschke, Bjoern Menze

* International Conference on Medical Image Computing and Computer-Assisted Intervention 2020 Oct 4 (pp. 593-602) 
* Accepted at MICCAI 2020 

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A Computed Tomography Vertebral Segmentation Dataset with Anatomical Variations and Multi-Vendor Scanner Data


Mar 10, 2021
Hans Liebl, David Schinz, Anjany Sekuboyina, Luca Malagutti, Maximilian T. Löffler, Amirhossein Bayat, Malek El Husseini, Giles Tetteh, Katharina Grau, Eva Niederreiter, Thomas Baum, Benedikt Wiestler, Bjoern Menze, Rickmer Braren, Claus Zimmer, Jan S. Kirschke

* 18 pages, 2 figures, 2 tables; Hans Liebl, David Schinz equally contributed to this manuscript 

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Imbalance-Aware Self-Supervised Learning for 3D Radiomic Representations


Mar 06, 2021
Hongwei Li, Fei-Fei Xue, Krishna Chaitanya, Shengda Liu, Ivan Ezhov, Benedikt Wiestler, Jianguo Zhang, Bjoern Menze


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GaNDLF: A Generally Nuanced Deep Learning Framework for Scalable End-to-End Clinical Workflows in Medical Imaging


Feb 26, 2021
Sarthak Pati, Siddhesh P. Thakur, Megh Bhalerao, Ujjwal Baid, Caleb Grenko, Brandon Edwards, Micah Sheller, Jose Agraz, Bhakti Baheti, Vishnu Bashyam, Parth Sharma, Babak Haghighi, Aimilia Gastounioti, Mark Bergman, Bjoern Menze, Despina Kontos, Christos Davatzikos, Spyridon Bakas


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A comparison of automatic multi-tissue segmentation methods of the human fetal brain using the FeTA Dataset


Oct 29, 2020
Kelly Payette, Priscille de Dumast, Hamza Kebiri, Ivan Ezhov, Johannes C. Paetzold, Suprosanna Shit, Asim Iqbal, Romesa Khan, Raimund Kottke, Patrice Grehten, Hui Ji, Levente Lanczi, Marianna Nagy, Monika Beresova, Thi Dao Nguyen, Giancarlo Natalucci, Theofanis Karayannis, Bjoern Menze, Meritxell Bach Cuadra, Andras Jakab

* Paper currently under review 

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Micro-CT Synthesis and Inner Ear Super Resolution via Bayesian Generative Adversarial Networks


Oct 27, 2020
Hongwei Li, Rameshwara G. N. Prasad, Anjany Sekuboyina, Chen Niu, Siwei Bai, Werner Hemmert, Bjoern Menze

* submitted it to a conference 

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AIFNet: Automatic Vascular Function Estimation for Perfusion Analysis Using Deep Learning


Oct 04, 2020
Ezequiel de la Rosa, Diana M. Sima, Bjoern Menze, Jan S. Kirschke, David Robben

* Preprint submitted to Elsevier 

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Generalisable Cardiac Structure Segmentation via Attentional and Stacked Image Adaptation


Sep 15, 2020
Hongwei Li, Jianguo Zhang, Bjoern Menze

* method description of our solution in M&M segmentation challenge, STACOM 2020 

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Complex Grey Matter Structure Segmentation in Brains via Deep Learning: Example of the Claustrum


Aug 08, 2020
Hongwei Li, Aurore Menegaux, Felix JB Bäuerlein, Suprosanna Shit, Benita Schmitz-Koep, Christian Sorg, Bjoern Menze, Dennis Hedderich

* submitted to a journal 

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Face Super-Resolution Guided by 3D Facial Priors


Jul 18, 2020
Xiaobin Hu, Wenqi Ren, John LaMaster, Xiaochun Cao, Xiaoming Li, Zechao Li, Bjoern Menze, Wei Liu

* Accepted as a spotlight paper, European Conference on Computer Vision 2020 (ECCV) 

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A distance-based loss for smooth and continuous skin layer segmentation in optoacoustic images


Jul 10, 2020
Stefan Gerl, Johannes C. Paetzold, Hailong He, Ivan Ezhov, Suprosanna Shit, Florian Kofler, Amirhossein Bayat, Giles Tetteh, Vasilis Ntziachristos, Bjoern Menze

* Accepted at International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2020 

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Feedback Graph Attention Convolutional Network for Medical Image Enhancement


Jun 24, 2020
Xiaobin Hu, Yanyang Yan, Wenqi Ren, Hongwei Li, Yu Zhao, Amirhossein Bayat, Bjoern Menze

* Magnetic resonance imaging and image enhancement and distortions degrading MRI and graph similarity branch and feedback mechanism 

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Red-GAN: Attacking class imbalance via conditioned generation. Yet another medical imaging perspective


Apr 30, 2020
Ahmad B Qasim, Ivan Ezhov, Suprosanna Shit, Oliver Schoppe, Johannes C Paetzold, Anjany Sekuboyina, Florian Kofler, Jana Lipkova, Hongwei Li, Bjoern Menze


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e-UDA: Efficient Unsupervised Domain Adaptation for Cross-Site Medical Image Segmentation


Jan 25, 2020
Hongwei Li, Timo Loehr, Benedikt Wiestler, Jianguo Zhang, Bjoern Menze

* under review and polishment 

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Compressive MRI quantification using convex spatiotemporal priors and deep auto-encoders


Jan 23, 2020
Mohammad Golbabaee, Guido Bounincontri, Carolin Pirkl, Marion Menzel, Bjoern Menze, Mike Davies, Pedro Gomez


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ModelHub.AI: Dissemination Platform for Deep Learning Models


Nov 26, 2019
Ahmed Hosny, Michael Schwier, Christoph Berger, Evin P Örnek, Mehmet Turan, Phi V Tran, Leon Weninger, Fabian Isensee, Klaus H Maier-Hein, Richard McKinley, Michael T Lu, Udo Hoffmann, Bjoern Menze, Spyridon Bakas, Andriy Fedorov, Hugo JWL Aerts


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Implicit Neural Solver for Time-dependent Linear PDEs with Convergence Guarantee


Oct 09, 2019
Suprosanna Shit, Abinav Ravi Venkatakrishnan, Ivan Ezhov, Jana Lipkova, Marie Piraud, Bjoern Menze

* Accepted in NeurIPS 2019 Workshop on Machine Learning with Guarantees 

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Adversarial Convolutional Networks with Weak Domain-Transfer for Multi-Sequence Cardiac MR Images Segmentation


Aug 28, 2019
Jingkun Chen, Hongwei Li, Jianguo Zhang, Bjoern Menze

* 9 pages, 4 figures, conference 

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Shape-Aware Complementary-Task Learning for Multi-Organ Segmentation


Aug 14, 2019
Fernando Navarro, Suprosanna Shit, Ivan Ezhov, Johannes Paetzold, Andrei Gafita, Jan Peeken, Stephanie Combs, Bjoern Menze

* Accepted in MLMI Workshop 2019 MICCAI 

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Neural parameters estimation for brain tumor growth modeling


Jul 01, 2019
Ivan Ezhov, Jana Lipkova, Suprosanna Shit, Florian Kofler, Nore Collomb, Benjamin Lemasson, Emmanuel Barbier, Bjoern Menze


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DiamondGAN: Unified Multi-Modal Generative Adversarial Networks for MRI Sequences Synthesis


Apr 29, 2019
Hongwei Li, Johannes C. Paetzold, Anjany Sekuboyina, Florian Kofler, Jianguo Zhang, Jan S. Kirschke, Benedikt Wiestler, Bjoern Menze


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