Publications
2026
The autoPET3 Challenge: Automated Lesion Segmentation in Whole-Body PET/CT – Multitracer Multicenter Generalization
Jakob Dexl, Katharina Jeblick, Andreas Mittermeier, Balthasar Schachtner, Anna Theresa Stüber, Johanna Topalis, Maximilian R. Rokuss, Fabian Isensee, Klaus Maier-Hein, Hamza Kalisch, Jens Kleesiek, Constantin Seibold, Hussain Alasmawi, Lap Yan Lennon Chan, Yixuan Yuan, Alexander Jaus, Rainer Stiefelhagen, Pauline Ornela Megne Choudja, Konstantin Nikolaou, Christian la Fougère, Sergios Gatidis, Matthias P. Fabritius, Maurice Heimer, Gizem Abaci, Lalith Kumar Shiyam Sundar, Rudolf A. Werner, Jens Ricke, Clemens C. Cyran, Thomas Küstner, Michael Ingrisch
arXiv 2025
AutoPET Challenge on Fully Automated Lesion Segmentation in Oncologic PET/CT Imaging, Part 2: Domain Generalization
Jakob Dexl, Sergios Gatidis, Marcel Früh, Katharina Jeblick, Andreas Mittermeier, Anna Theresa Stüber, Balthasar Schachtner, Johanna Topalis, Matthias P. Fabritius, Sijing Gu, Gowtham Krishnan Murugesan, Jeff VanOss, Jin Ye, Junjun He, Anissa Alloula, Bartłomiej W. Papież, Zacharia Mesbah, Romain Modzelewski, Matthias Hadlich, Zdravko Marinov, Rainer Stiefelhagen, Fabian Isensee, Klaus Maier-Hein, Adrian Galdran, Konstantin Nikolaou, Christian la Fougère, Moon-Sung Kim, Nico Kallenberg, Jens Kleesiek, Ken Herrmann, Rudolf A. Werner, Michael Ingrisch, Clemens C. Cyran, Thomas Küstner
Journal of Nuclear Medicine 2024
Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting
Maximilian R. Rokuss, Yannick Kirchhoff, Saikat Roy, Balint Kovacs, Constantin Ulrich, Tassilo Wald, Maximilian Zenk, Stefan Denner, Fabian Isensee, Philipp Vollmuth, Jens Kleesiek, Klaus Maier-Hein
arXiv
Metrics reloaded: recommendations for image analysis validation
Lena Maier-Hein, Annika Reinke, Patrick Godau, Minu D. Tizabi, Florian Buettner, Evangelia Christodoulou, Ben Glocker, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, A. Emre Kavur, Carole H. Sudre, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, Tim Rädsch, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew B. Blaschko, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Florian Kofler, Annette Kopp-Schneider, Anna Kreshuk, Tahsin Kurc, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Björn Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Nasir Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Paul F. Jäger
Nature Methods
Understanding metric-related pitfalls in image analysis validation
Annika Reinke, Minu D. Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Florian Buettner, M. Jorge Cardoso, Veronika Cheplygina, Jianxu Chen, Evangelia Christodoulou, Beth A. Cimini, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Ben Glocker, Patrick Godau, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Jens Kleesiek, Florian Kofler, Thijs Kooi, Annette Kopp-Schneider, Michal Kozubek, Anna Kreshuk, Tahsin Kurc, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus Maier-Hein, Anne L. Martel, Erik Meijering, Björn Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Susanne M. Rafelski, Nasir Rajpoot, Mauricio Reyes, Michael A. Riegler, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein
Nature Methods
Skeleton Recall Loss for Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures
Yannick Kirchhoff, Maximilian R. Rokuss, Saikat Roy, Balint Kovacs, Constantin Ulrich, Tassilo Wald, Maximilian Zenk, Philipp Vollmuth, Jens Kleesiek, Fabian Isensee, Klaus Maier-Hein
Computer Vision – ECCV 2024 2022
Metrics reloaded: Pitfalls and recommendations for image analysis validation
Lena Maier-Hein, Annika Reinke, Evangelia Christodoulou, Ben Glocker, Patrick Godau, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Minu D. Tizabi, Laura Acion, Michela Antonelli, Tal Arbel, Spyridon Bakas, Peter Bankhead, Arriel Benis, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Bram van Ginneken, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Alexandros Karargyris, Alan Karthikesalingam, Hannes Goetz Kenngott, Annette Kopp-Schneider, Anna Kreshuk, Tahsin Kurc, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Björn Menze, David Moher, Karel G. M. Moons, Henning Müller, Felix Nickel, Brennan Nichyporuk, Jens Petersen, Nasir Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clarisa Sánchez Gutiérrez, Shravya Shetty, Maarten van Smeden, Carole H. Sudre, Ronald M. Summers, Abdel A. Taha, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Paul F. Jäger 2021
Common Limitations of Image Processing Metrics: A Picture Story
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, Björn Menze, Henning Müller, Jens Petersen, Mauricio Reyes, Nicola Rieke, Bram Stieltjes, Ronald M. Summers, Sotirios A. Tsaftaris, Bram van Ginneken, Annette Kopp-Schneider, Paul F. Jäger, Lena Maier-Hein
arXiv:2104.05642 [cs, eess] 2019
Can Virtual Contrast Enhancement in Brain MRI Replace Gadolinium?: A Feasibility Study
Jens Kleesiek, Jan Nikolas Morshuis, Fabian Isensee, Katerina Deike-Hofmann, Daniel Paech, Philipp Kickingereder, Ullrich Köthe, Carsten Rother, Michael Forsting, Wolfgang Wick, Martin Bendszus, Heinz-Peter Schlemmer, Alexander Radbruch
Investigative Radiology 
