Clickstream analysis for crowd-based object segmentation with confidence. - Eric Heim; Alexander Seitel; Christian Stock; Fabian Isensee; Lena Maier-Hein (CoRR, 2016)

Tutorial: Deep Learning Advancing the State-of-the-Art in Medical Image Analysis. - Vincent Christlein; Florin C. Ghesu; Tobias Würfl; Andreas K. Maier; Fabian Isensee; Peter Neher; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2017)

Brain Tumor Segmentation Using Large Receptive Field Deep Convolutional Neural Networks. - Fabian Isensee; Philipp Kickingereder; David Bonekamp; Martin Bendszus; Wolfgang Wick; Heinz-Peter Schlemmer; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2017)

Automatic Cardiac Disease Assessment on cine-MRI via Time-Series Segmentation and Domain Specific Features. - Fabian Isensee; Paul F. Jaeger; Peter M. Full; Ivo Wolf; Sandy Engelhardt; Klaus H. Maier-Hein (STACOM@MICCAI, 2017)

Brain Tumor Segmentation and Radiomics Survival Prediction: Contribution to the BRATS 2017 Challenge. - Fabian Isensee; Philipp Kickingereder; Wolfgang Wick; Martin Bendszus; Klaus H. Maier-Hein (BrainLes@MICCAI, 2017)

Direct White Matter Bundle Segmentation using Stacked U-Nets. - Jakob Wasserthal; Peter F. Neher; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2017)

Exploiting the potential of unlabeled endoscopic video data with self-supervised learning. - Tobias Roß; David Zimmerer; Anant Suraj Vemuri; Fabian Isensee; Sebastian Bodenstedt; Fabian Both; Philip Kessler; Martin Wagner 001; Beat Müller; Hannes Kenngott; Stefanie Speidel; Klaus H. Maier-Hein; et al. (CoRR, 2017)

Advanced Deep Learning Methods. - Paul Jäger 002; Fabian Isensee; Jens Petersen; David Zimmerer; Jakob Wasserthal; Klaus Hermann Maier-Hein (Bildverarbeitung für die Medizin, 2018)

Abstract: Rekonstruktion der initialen Druckverteilung photoakustischer Bilder mit limitiertem Blickwinkel durch maschinelle Lernverfahren. - Dominik Waibel; Janek Gröhl; Fabian Isensee; Klaus Hermann Maier-Hein; Lena Maier-Hein (Bildverarbeitung für die Medizin, 2018)

No New-Net. - Fabian Isensee; Philipp Kickingereder; Wolfgang Wick; Martin Bendszus; Klaus H. Maier-Hein (BrainLes@MICCAI (2), 2018)

Exploiting the potential of unlabeled endoscopic video data with self-supervised learning. - Tobias Roß; David Zimmerer; Anant Suraj Vemuri; Fabian Isensee; Manuel Wiesenfarth; Sebastian Bodenstedt; Fabian Both; Philip Kessler; Martin Wagner 001; Beat Müller; Hannes Kenngott; Stefanie Speidel; et al. (Int. J. Comput. Assist. Radiol. Surg., 2018)

nnU-Net: Self-adapting Framework for U-Net-Based Medical Image Segmentation. - Fabian Isensee; Jens Petersen; André Klein; David Zimmerer; Paul F. Jaeger; Simon Kohl; Jakob Wasserthal; Gregor Köhler; Tobias Norajitra; Sebastian J. Wirkert; Klaus H. Maier-Hein (CoRR, 2018)

Context-encoding Variational Autoencoder for Unsupervised Anomaly Detection. - David Zimmerer; Simon A. A. Kohl; Jens Petersen; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2018)

Clickstream Analysis for Crowd-Based Object Segmentation with Confidence. - Eric Heim; Alexander Seitel; Jonas Andrulis; Fabian Isensee; Christian Stock; Tobias Roß; Lena Maier-Hein (IEEE Trans. Pattern Anal. Mach. Intell., 2018)

Deep Learning Techniques for Automatic MRI Cardiac Multi-Structures Segmentation and Diagnosis: Is the Problem Solved? - Olivier Bernard 001; Alain Lalande; Clément Zotti; Frederic Cervenansky; Xin Yang 009; Pheng-Ann Heng; Irem Cetin; Karim Lekadir; Oscar Camara 001; Miguel Ángel González Ballester; Gerard Sanroma; Sandy Napel; et al. (IEEE Trans. Medical Imaging, 2018)

Abstract: nnU-Net: Self-adapting Framework for U-Net-Based Medical Image Segmentation. - Fabian Isensee; Jens Petersen; André Klein; David Zimmerer; Paul F. Jaeger; Simon Kohl; Jakob Wasserthal; Gregor Köhler; Tobias Norajitra; Sebastian J. Wirkert; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2019)

Efficient Web-Based Review for Automatic Segmentation of Volumetric DICOM Images. - Tobias Stein; Jasmin Metzger; Jonas Scherer; Fabian Isensee; Tobias Norajitra; Jens Kleesiek; Klaus H. Maier-Hein; Marco Nolden (Bildverarbeitung für die Medizin, 2019)

Deep Probabilistic Modeling of Glioma Growth. - Jens Petersen; Paul F. Jäger; Fabian Isensee; Simon A. A. Kohl; Ulf Neuberger; Wolfgang Wick; Jürgen Debus; Sabine Heiland; Martin Bendszus; Philipp Kickingereder; Klaus H. Maier-Hein (MICCAI (2), 2019)

Unsupervised Anomaly Localization Using Variational Auto-Encoders. - David Zimmerer; Fabian Isensee; Jens Petersen; Simon Kohl; Klaus H. Maier-Hein (MICCAI (4), 2019)

Retina U-Net: Embarrassingly Simple Exploitation of Segmentation Supervision for Medical Object Detection. - Paul F. Jaeger; Simon A. A. Kohl; Sebastian Bickelhaupt; Fabian Isensee; Tristan Anselm Kuder; Heinz-Peter Schlemmer; Klaus H. Maier-Hein (ML4H@NeurIPS, 2019)

Computer-assisted intra-operative verification of surgical outcome for the treatment of syndesmotic injuries through contralateral side comparison. - Sarina Thomas; Fabian Isensee; Simon Kohl; Maxim Privalov; Nils Beisemann; Benedict Swartman; Holger Keil; Sven Yves Vetter; Jochen Franke; Paul Alfred Grützner; Lena Maier-Hein; Marco Nolden; et al. (Int. J. Comput. Assist. Radiol. Surg., 2019)

Automated brain extraction of multi-sequence MRI using artificial neural networks. - Fabian Isensee; Marianne Schell; Irada Tursunova; Gianluca Brugnara; David Bonekamp; Ulf Neuberger; Antje Wick; Heinz-Peter Schlemmer; Sabine Heiland; Wolfgang Wick; Martin Bendszus; Klaus Hermann Maier-Hein; et al. (CoRR, 2019)

nnU-Net: Breaking the Spell on Successful Medical Image Segmentation. - Fabian Isensee; Jens Petersen; Simon A. A. Kohl; Paul F. Jäger; Klaus H. Maier-Hein (CoRR, 2019)

An attempt at beating the 3D U-Net. - Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2019)

ModelHub.AI: Dissemination Platform for Deep Learning Models. - Ahmed Hosny; Michael Schwier; Christoph Berger; Evin Pinar Örnek; Mehmet Turan; Phi V. Tran; Leon Weninger; Fabian Isensee; Klaus H. Maier-Hein; Richard McKinley; Michael T. Lu; Udo Hoffmann; et al. (CoRR, 2019)

The state of the art in kidney and kidney tumor segmentation in contrast-enhanced CT imaging: Results of the KiTS19 Challenge. - Nicholas Heller; Fabian Isensee; Klaus H. Maier-Hein; Xiaoshuai Hou; Chunmei Xie; Fengyi Li; Yang Nan 002; Guangrui Mu; Zhiyong Lin; Miofei Han; Guang Yao; Yaozong Gao; et al. (CoRR, 2019)

Abstract: Deep Probabilistic Modeling of Glioma Growth. - Jens Petersen; Paul F. Jäger; Fabian Isensee; Simon A. A. Kohl; Ulf Neuberger; Wolfgang Wick; Jürgen Debus; Sabine Heiland; Martin Bendszus; Philipp Kickingereder; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2020)

Abstract: Unsupervised Anomaly Localization Using Variational Auto-Encoders. - David Zimmerer; Fabian Isensee; Jens Petersen; Simon Kohl; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2020)

nnU-Net for Brain Tumor Segmentation. - Fabian Isensee; Paul F. Jäger; Peter M. Full; Philipp Vollmuth; Klaus H. Maier-Hein (BrainLes@MICCAI (2), 2020)

Studying Robustness of Semantic Segmentation Under Domain Shift in Cardiac MRI. - Peter M. Full; Fabian Isensee; Paul F. Jäger; Klaus H. Maier-Hein (M&Ms and EMIDEC/STACOM@MICCAI, 2020)

Robust Medical Instrument Segmentation Challenge 2019. - Tobias Roß; Annika Reinke; Peter M. Full; Martin Wagner 001; Hannes Kenngott; Martin Apitz; Hellena Hempe; Diana Mîndroc-Filimon; Patrick Scholz 001; Thuy Nuong Tran; Pierangela Bruno; Pablo Arbeláez; et al. (CoRR, 2020)

OR-UNet: an Optimized Robust Residual U-Net for Instrument Segmentation in Endoscopic Images. - Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2020)

From Manual to Automated Design of Biomedical Semantic Segmentation Methods - Fabian Isensee (2020)

Abstract: Studying Robustness of Semantic Segmentation under Domain Shift in Cardiac MRI. - Peter M. Full; Fabian Isensee; Paul F. Jäger; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2021)

nnDetection: A Self-configuring Method for Medical Object Detection. - Michael Baumgartner 001; Paul F. Jäger; Fabian Isensee; Klaus H. Maier-Hein (MICCAI (5), 2021)

Continuous-Time Deep Glioma Growth Models. - Jens Petersen; Fabian Isensee; Gregor Köhler; Paul F. Jäger; David Zimmerer; Ulf Neuberger; Wolfgang Wick; Jürgen Debus; Sabine Heiland; Martin Bendszus; Philipp Vollmuth; Klaus H. Maier-Hein (MICCAI (3), 2021)

Automatic image-based pedicle screw planning. - Lisa Kausch; Moritz Scherer 002; Sarina Thomas; André Klein; Fabian Isensee; Klaus H. Maier-Hein (Image-Guided Procedures, 2021)

GP-ConvCNP: Better generalization for conditional convolutional Neural Processes on time series data. - Jens Petersen; Gregor Köhler; David Zimmerer; Fabian Isensee; Paul F. Jäger; Klaus H. Maier-Hein (UAI, 2021)

Analyzing magnetic resonance imaging data from glioma patients using deep learning. - Bjoern H. Menze; Fabian Isensee; Roland Wiest; Benedikt Wiestler; Klaus H. Maier-Hein; Mauricio Reyes 001; Spyridon Bakas (Comput. Medical Imaging Graph., 2021)

Are we using appropriate segmentation metrics? Identifying correlates of human expert perception for CNN training beyond rolling the DICE coefficient. - Florian Kofler; Ivan Ezhov; Fabian Isensee; Fabian Balsiger; Christoph Berger; Maximilian Koerner; Johannes C. Paetzold; Hongwei Li 004; Suprosanna Shit; Richard McKinley; Spyridon Bakas; Claus Zimmer; et al. (CoRR, 2021)

Common Limitations of Image Processing Metrics: A Picture Story. - Annika Reinke; Matthias Eisenmann; Minu Dietlinde Tizabi; Carole H. Sudre; Tim Rädsch; Michela Antonelli; Tal Arbel; Spyridon Bakas; M. Jorge Cardoso; Veronika Cheplygina; Keyvan Farahani; Ben Glocker; et al. (CoRR, 2021)

GP-ConvCNP: Better Generalization for Convolutional Conditional Neural Processes on Time Series Data. - Jens Petersen; Gregor Köhler; David Zimmerer; Fabian Isensee; Paul F. Jäger; Klaus H. Maier-Hein (CoRR, 2021)

The Medical Segmentation Decathlon. - Michela Antonelli; Annika Reinke; Spyridon Bakas; Keyvan Farahani; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens 001; Bjoern H. Menze; Olaf Ronneberger; Ronald M. Summers; Bram van Ginneken; Michel Bilello; et al. (CoRR, 2021)

How can we learn (more) from challenges? A statistical approach to driving future algorithm development. - Tobias Roß; Pierangela Bruno; Annika Reinke; Manuel Wiesenfarth; Lisa Koeppel; Peter M. Full; Bünyamin Pekdemir; Patrick Godau; Darya Trofimova; Fabian Isensee; Sara Moccia; Francesco Calimeri; et al. (CoRR, 2021)

Classification of diffraction patterns using a convolutional neural network in single particle imaging experiments performed at X-ray free-electron lasers. - Dameli Assalauova; Alexandr Ignatenko; Fabian Isensee; Sergey A. Bobkov; Darya Trofimova; Ivan A. Vartanyants (CoRR, 2021)

The state of the art in kidney and kidney tumor segmentation in contrast-enhanced CT imaging: Results of the KiTS19 challenge. - Nicholas Heller; Fabian Isensee; Klaus H. Maier-Hein; Xiaoshuai Hou; Chunmei Xie; Fengyi Li; Yang Nan 002; Guangrui Mu; Zhiyong Lin; Miofei Han; Guang Yao; Yaozong Gao; et al. (Medical Image Anal., 2021)

CHAOS Challenge - combined (CT-MR) healthy abdominal organ segmentation. - A. Emre Kavur; Naciye Sinem Gezer; Mustafa Baris; Sinem Aslan; Pierre-Henri Conze; Vladimir Groza; Duc Duy Pham; Soumick Chatterjee; Philipp Ernst; Savas Özkan; Bora Baydar; Dmitry A. Lachinov; et al. (Medical Image Anal., 2021)

Comparative validation of multi-instance instrument segmentation in endoscopy: Results of the ROBUST-MIS 2019 challenge. - Tobias Roß; Annika Reinke; Peter M. Full; Martin Wagner 001; Hannes Kenngott; Martin Apitz; Hellena Hempe; Diana Mîndroc-Filimon; Patrick Scholz 001; Thuy Nuong Tran; Pierangela Bruno; Pablo Arbeláez; et al. (Medical Image Anal., 2021)

Abstract: nnDetection - A Self-configuring Method for Medical Object Detection. - Michael Baumgartner 001; Paul F. Jäger; Fabian Isensee; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2022)

Realistic Evaluation of FixMatch on Imbalanced Medical Image Classification Tasks. - Maximilian Zenk; David Zimmerer; Fabian Isensee; Paul F. Jäger; Jakob Wasserthal; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2022)

Heterogeneous Model Ensemble For Automatic Polyp Segmentation In Endoscopic Video Sequences. - Thuy Nuong Tran; Fabian Isensee; Lars Krämer; Amine Yamlahi; Tim Adler; Patrick Godau; Minu Tizabi; Lena Maier-Hein (EndoCV@ISBI, 2022)

A Noisy nnU-Net Student for Semi-supervised Abdominal Organ Segmentation. - Gregor Köhler; Fabian Isensee; Klaus H. Maier-Hein (FLARE@MICCAI, 2022)

Precise Energy Consumption Measurements of Heterogeneous Artificial Intelligence Workloads. - René Caspart; Sebastian Ziegler; Arvid Weyrauch; Holger Obermaier; Simon Raffeiner; Leon Pascal Schuhmacher; Jan Scholtyssek; Darya Trofimova; Marco Nolden; Ines Reinartz; Fabian Isensee; Markus Götz; et al. (ISC Workshops, 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 001; Mauricio Reyes 001; Michael A. Riegler; Manuel Wiesenfarth; Michael Baumgartner 001; et al. (CoRR, 2022)

Evaluation of Medical Image Segmentation Models for Uncertain, Small or Empty Reference Annotations. - Sophie Ostmeier; Brian Axelrod; Jeroen Bertels; Fabian Isensee; Maarten G. Lansberg; Soren Christensen; Gregory W. Albers; Li-Jia Li 001; Jeremy J. Heit (CoRR, 2022)

Biomedical image analysis competitions: The state of current participation practice. - Matthias Eisenmann; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Fabian Isensee; Tim J. Adler; Patrick Godau; Veronika Cheplygina; Michal Kozubek 001; Sharib Ali; Anubha Gupta; Jan Kybic; et al. (CoRR, 2022)

Rapid artificial intelligence solutions in a pandemic - The COVID-19-20 Lung CT Lesion Segmentation Challenge. - Holger R. Roth; Ziyue Xu 001; Carlos Tor-Díez; Ramon Sánchez-Jacob; Jonathan Zember; Jose Molto; Wenqi Li 001; Sheng Xu 001; Baris Turkbey; Evrim Turkbey; Dong Yang 005; Ahmed Harouni; et al. (Medical Image Anal., 2022)

MOOD 2020: A Public Benchmark for Out-of-Distribution Detection and Localization on Medical Images. - David Zimmerer; Peter M. Full; Fabian Isensee; Paul Jäger 002; Tim Adler; Jens Petersen; Gregor Köhler; Tobias Roß; Annika Reinke; Antanas Kascenas; Bjørn Sand Jensen; Alison Q. O'Neil; et al. (IEEE Trans. Medical Imaging, 2022)

Extending nnU-Net Is All You Need. - Fabian Isensee; Constantin Ulrich; Tassilo Wald; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2023)

Contrastive Representations for Unsupervised Anomaly Detection and Localization. - Carsten T. Lüth; David Zimmerer; Gregor Köhler; Paul F. Jaeger; Fabian Isensee; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2023)

Abstract: Automated Detection and Quantification of Brain Metastases on Clinical MRI Data using CNNs. - Irada Pflüger; Tassilo Wald; Fabian Isensee; Marianne Schell; Hagen Meredig; Kai Schlamp; Denise Bernhardt; Gianluca Brugnara; Claus Peter Heußel; Juergen Debus; Wolfgang Wick; Martin Bendszus; et al. (Bildverarbeitung für die Medizin, 2023)

Abstract: MOOD 2020 - A Public Benchmark for Out-of-distribution Detection and Localization on Medical Images. - David Zimmerer; Peter M. Full; Fabian Isensee; Paul Jäger 002; Tim Adler; Jens Petersen; Gregor Köhler; Tobias Roß; Annika Reinke; Antanas Kascenas; Bjørn Sand Jensen; Alison Q. O'Neil; et al. (Bildverarbeitung für die Medizin, 2023)

Why is the Winner the Best? - Matthias Eisenmann; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Fabian Isensee; Tim J. Adler; Sharib Ali; Vincent Andrearczyk; Marc Aubreville; Ujjwal Baid; Spyridon Bakas; Niranjan Balu; et al. (CVPR, 2023)

Anatomy-Informed Data Augmentation for Enhanced Prostate Cancer Detection. - Balint Kovacs; Nils Netzer; Michael Baumgartner 001; Carolin Eith; Dimitrios Bounias; Clara Meinzer; Paul F. Jäger; Kevin S. Zhang; Ralf Floca; Adrian Schrader; Fabian Isensee; Regula Gnirs; et al. (MICCAI (7), 2023)

MedNeXt: Transformer-Driven Scaling of ConvNets for Medical Image Segmentation. - Saikat Roy; Gregor Köhler; Constantin Ulrich; Michael Baumgartner 001; Jens Petersen; Fabian Isensee; Paul F. Jäger; Klaus H. Maier-Hein (MICCAI (4), 2023)

MultiTalent: A Multi-dataset Approach to Medical Image Segmentation. - Constantin Ulrich; Fabian Isensee; Tassilo Wald; Maximilian Zenk; Michael Baumgartner 001; Klaus H. Maier-Hein (MICCAI (3), 2023)

CRADL: Contrastive Representations for Unsupervised Anomaly Detection and Localization. - Carsten T. Lüth; David Zimmerer; Gregor Köhler; Paul F. Jaeger; Fabian Isensee; Jens Petersen; Klaus H. Maier-Hein (CoRR, 2023)

[Work in progress] Scalable, out-of-the box segmentation of individual particles from mineral samples acquired with micro CT. - Karol Gotkowski; Shuvam Gupta; Jose R. A. Godinho; Camila G. S. Tochtrop; Klaus H. Maier-Hein; Fabian Isensee (CoRR, 2023)

Understanding metric-related pitfalls in image analysis validation. - Annika Reinke; Minu Tizabi; Michael Baumgartner 001; Matthias Eisenmann; Doreen Heckmann-Nötzel; A. Emre Kavur; Tim Rädsch; Carole H. Sudre; Laura Ación; Michela Antonelli; Tal Arbel; Spyridon Bakas; et al. (CoRR, 2023)

Why is the winner the best? - Matthias Eisenmann; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Fabian Isensee; Tim J. Adler; Sharib Ali; Vincent Andrearczyk; Marc Aubreville; Ujjwal Baid; Spyridon Bakas; Niranjan Balu; et al. (CoRR, 2023)

Transformer Utilization in Medical Image Segmentation Networks. - Saikat Roy; Gregor Köhler; Michael Baumgartner 001; Constantin Ulrich; Jens Petersen; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2023)

The KiTS21 Challenge: Automatic segmentation of kidneys, renal tumors, and renal cysts in corticomedullary-phase CT. - Nicholas Heller; Fabian Isensee; Dasha Trofimova; Resha Tejpaul; Zhongchen Zhao; Huai Chen; Lisheng Wang; Alex Golts; Daniel Khapun; Daniel Shats; Yoel Shoshan; Flora Gilboa-Solomon; et al. (CoRR, 2023)

Exploring new ways: Enforcing representational dissimilarity to learn new features and reduce error consistency. - Tassilo Wald; Constantin Ulrich; Fabian Isensee; David Zimmerer; Gregor Köhler; Michael Baumgartner 001; Klaus H. Maier-Hein (CoRR, 2023)

Look Ma, no code: fine tuning nnU-Net for the AutoPET II challenge by only adjusting its JSON plans. - Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2023)

Panoptica - instance-wise evaluation of 3D semantic and instance segmentation maps. - Florian Kofler; Hendrik Kristian Möller; Josef A. Buchner; Ezequiel de la Rosa; Ivan Ezhov; Marcel Rosier; Isra Mekki; Suprosanna Shit; Moritz Negwer; Rami Al-Maskari; Ali Ertürk; Shankeeth Vinayahalingam; et al. (CoRR, 2023)

The Liver Tumor Segmentation Benchmark (LiTS). - Patrick Bilic; Patrick Ferdinand Christ; Hongwei Li 004; Eugene Vorontsov; Avi Ben-Cohen; Georgios Kaissis; Adi Szeskin; Colin Jacobs; Gabriel Efrain Humpire Mamani; Gabriel Chartrand; Fabian Lohöfer; Julian Walter Holch; et al. (Medical Image Anal., 2023)

LungVis1.0: Active learning AI-powered 3D imaging ecosystem for spatial profiling of lung geometry and pulmonary nanoparticle delivery. - Lin Yang; Otmar Schmid; Fabian Isensee (Zenodo, 2023)

Beyond rankings: Learning (more) from algorithm validation. - Tobias Roß; Pierangela Bruno; Annika Reinke; Manuel Wiesenfarth; Lisa Koeppel; Peter M. Full; Bünyamin Pekdemir; Patrick Godau; Darya Trofimova; Fabian Isensee; Tim J. Adler; Thuy Nuong Tran; et al. (Medical Image Anal., 2023)

USE-Evaluator: Performance metrics for medical image segmentation models supervised by uncertain, small or empty reference annotations in neuroimaging. - Sophie Ostmeier; Brian Axelrod; Fabian Isensee; Jeroen Bertels; Michael Mlynash; Soren Christensen; Maarten G. Lansberg; Gregory W. Albers; Rajen Sheth; Benjamin F. J. Verhaaren; Abdelkader Mahammedi; Li-Jia Li 001; et al. (Medical Image Anal., 2023)

Abstract: RecycleNet - Latent Feature Recycling Leads to Iterative Decision Refinement. - Gregor Köhler; Tassilo Wald; Constantin Ulrich; David Zimmerer; Paul F. Jaeger; Jörg K. H. Franke; Simon Kohl; Fabian Isensee; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2024)

Abstract: Anatomy-informed Data Augmentation for Enhanced Prostate Cancer Detection. - Balint Kovacs; Nils Netzer; Michael Baumgartner 001; Carolin Eith; Dimitrios Bounias; Clara Meinzer; Paul F. Jäger; Kevin S. Zhang; Ralf Floca; Adrian Schrader; Fabian Isensee; Regula Gnirs; et al. (Bildverarbeitung für die Medizin, 2024)

Abstract: 3D Medical Image Segmentation with Transformer-based Scaling of ConvNets - MedNeXt. - Saikat Roy; Gregor Köhler; Michael Baumgartner 001; Constantin Ulrich; Fabian Isensee; Paul F. Jaeger; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2024)

Abstract: Multi-dataset Approach to Medical Image Segmentation - MultiTalent. - Constantin Ulrich; Fabian Isensee; Tassilo Wald; Maximilian Zenk; Michael Baumgartner 001; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2024)

Skeleton Recall Loss for Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures. - Yannick Kirchhoff; Maximilian Rokuss; Saikat Roy; Balint Kovacs; Constantin Ulrich; Tassilo Wald; Maximilian Zenk; Philipp Vollmuth; Jens Kleesiek; Fabian Isensee; Klaus H. Maier-Hein (ECCV (77), 2024)

Quality Assured: Rethinking Annotation Strategies in Imaging AI. - Tim Rädsch; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Nicholas Heller; Fabian Isensee; Annette Kopp-Schneider; Lena Maier-Hein (ECCV (78), 2024)

Scaling nnU-Net for CBCT Segmentation. - Fabian Isensee; Yannick Kirchhoff; Lars Krämer; Maximilian Rokuss; Constantin Ulrich; Klaus H. Maier-Hein (ToothFairy/3DTeethLand/STS@MICCAI, 2024)

nnU-Net Revisited: A Call for Rigorous Validation in 3D Medical Image Segmentation. - Fabian Isensee; Tassilo Wald; Constantin Ulrich; Michael Baumgartner 001; Saikat Roy; Klaus H. Maier-Hein; Paul F. Jäger (MICCAI (9), 2024)

Efficient Pan-Cancer Lesion Segmentation from Partially Labeled Data with nnU-Net. - Yannick Kirchhoff; Maximilian Rokuss; Benjamin Hamm; Ashis Ravindran; Constantin Ulrich; Klaus H. Maier-Hein; Fabian Isensee (FLARE@MICCAI, 2024)

Efficient Cross-Modality Abdominal Organ Segmentation Using nnU-Net and MIND Descriptors. - Yannick Kirchhoff; Maximilian Rokuss; Benjamin Hamm; Ashis Ravindran; Constantin Ulrich; Klaus H. Maier-Hein; Fabian Isensee (FLARE@MICCAI, 2024)

Optimizing nnU-Net with OpenVINO for Fast CPU Inference in Abdominal Organ Segmentation. - Yannick Kirchhoff; Ashis Ravindran; Maximilian Rokuss; Benjamin Hamm; Constantin Ulrich; Klaus H. Maier-Hein; Fabian Isensee (FLARE@MICCAI, 2024)

Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting. - Maximilian Rokuss; Yannick Kirchhoff; Saikat Roy; Balint Kovacs; Constantin Ulrich; Tassilo Wald; Maximilian Zenk; Stefan Denner; Fabian Isensee; Philipp Vollmuth; Jens Kleesiek; Klaus H. Maier-Hein (LDTM/MMMI/ML4MHD/ML-CDS@MICCAI, 2024)

Mitigating False Predictions in Unreasonable Body Regions. - Constantin Ulrich; Catherine Knobloch; Julius Holzschuh; Tassilo Wald; Maximilian Rokuss; Maximilian Zenk; Maximilian Fischer; Michael Baumgartner 001; Fabian Isensee; Klaus H. Maier-Hein (MLMI@MICCAI (2), 2024)

Touchstone Benchmark: Are We on the Right Way for Evaluating AI Algorithms for Medical Segmentation? - Pedro R. A. S. Bassi; Wenxuan Li; Yucheng Tang; Fabian Isensee; Zifu Wang; Jieneng Chen; Yu-Cheng Chou; Yannick Kirchhoff; Maximilian Rokuss; Ziyan Huang; Jin Ye 002; Junjun He; et al. (NeurIPS, 2024)

Decoupling Semantic Similarity from Spatial Alignment for Neural Networks. - Tassilo Wald; Constantin Ulrich; Priyank Jaini; Gregor Köhler; David Zimmerer; Stefan Denner; Fabian Isensee; Michael Baumgartner 001; Klaus H. Maier-Hein (NeurIPS, 2024)

RecycleNet: Latent Feature Recycling Leads to Iterative Decision Refinement. - Gregor Köhler; Tassilo Wald; Constantin Ulrich; David Zimmerer; Paul F. Jaeger; Jörg K. H. Franke; Simon Kohl; Fabian Isensee; Klaus H. Maier-Hein (WACV, 2024)

Embarrassingly Simple Scribble Supervision for 3D Medical Segmentation. - Karol Gotkowski; Carsten T. Lüth; Paul F. Jäger; Sebastian Ziegler; Lars Krämer; Stefan Denner; Shuhan Xiao; Nico Disch; Klaus H. Maier-Hein; Fabian Isensee (CoRR, 2024)

From FDG to PSMA: A Hitchhiker's Guide to Multitracer, Multicenter Lesion Segmentation in PET/CT Imaging. - Maximilian Rokuss; Balint Kovacs; Yannick Kirchhoff; Shuhan Xiao; Constantin Ulrich; Klaus H. Maier-Hein; Fabian Isensee (CoRR, 2024)

Data-Centric Strategies for Overcoming PET/CT Heterogeneity: Insights from the AutoPET III Lesion Segmentation Challenge. - Balint Kovacs; Shuhan Xiao; Maximilian Rokuss; Constantin Ulrich; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2024)

Touchstone Benchmark: Are We on the Right Way for Evaluating AI Algorithms for Medical Segmentation? - Pedro R. A. S. Bassi; Wenxuan Li; Yucheng Tang; Fabian Isensee; Zifu Wang; Jieneng Chen; Yu-Cheng Chou; Yannick Kirchhoff; Maximilian Rokuss; Ziyan Huang; Jin Ye 002; Junjun He; et al. (CoRR, 2024)

Metrics Reloaded: A framework for trustworthy image analysis validation. - Ali Emre Kavur; Annika Reinke; Paul F. Jäger; Fabian Isensee; Tim Rädsch; Minu Dietlinde Tizabi; Lena Maier-Hein (Zenodo, 2024)

Abstract: nnU-Net Revisited - Call for Rigorous Validation in 3D Medical Image Segmentation. - Fabian Isensee; Tassilo Wald; Constantin Ulrich; Michael Baumgartner 001; Saikat Roy; Klaus H. Maier-Hein; Paul F. Jäger (Bildverarbeitung für die Medizin, 2025)

Abstract: Skeleton Recall Loss - Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures. - Yannick Kirchhoff; Maximilian Rokuss; Saikat Roy; Balint Kovacs; Constantin Ulrich; Tassilo Wald; Maximilian Zenk; Philipp Vollmuth; Jens Kleesiek; Fabian Isensee; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2025)

Abstract: Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting. - Maximilian Rokuss; Yannick Kirchhoff; Saikat Roy; Balint Kovacs; Constantin Ulrich; Tassilo Wald; Maximilian Zenk; Stefan Denner; Fabian Isensee; Philipp Vollmuth; Jens Kleesiek; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2025)

Comparative benchmarking of failure detection methods in medical image segmentation: Unveiling the role of confidence aggregation. - Maximilian Zenk; David Zimmerer; Fabian Isensee; Jeremias Traub; Tobias Norajitra; Paul F. Jäger; Klaus H. Maier-Hein (Medical Image Anal., 2025)

nnActive: A Framework for Evaluation of Active Learning in 3D Biomedical Segmentation. - Carsten T. Lüth; Jeremias Traub; Kim-Celine Kahl; Till J. Bungert; Lukas Klein; Lars Krämer; Paul F. Jaeger; Fabian Isensee; Klaus H. Maier-Hein (Trans. Mach. Learn. Res., 2025)

ScaleMAI: Accelerating the Development of Trusted Datasets and AI Models. - Wenxuan Li; Pedro R. A. S. Bassi; Tianyu Lin; Yu-Cheng Chou; Xinze Zhou; Yucheng Tang; Fabian Isensee; Kang Wang 004; Qi Chen; Xiaowei Xu; Xiaoxi Chen; Lizhou Wu; et al. (CoRR, 2025)

Code and Pixels: Multi-Modal Contrastive Pre-training for Enhanced Tabular Data Analysis. - Kankana Roy; Lars Krämer; Sebastian Domaschke; Malik Haris; Roland Aydin; Fabian Isensee; Martin Held (CoRR, 2025)

Multi-Class Segmentation of Aortic Branches and Zones in Computed Tomography Angiography: The AortaSeg24 Challenge. - Muhammad Imran 013; Jonathan R. Krebs; Vishal Balaji Sivaraman; Teng Zhang; Amarjeet Kumar; Walker R. Ueland; Michael J. Fassler; Jinlong Huang; Xiao Sun; Lisheng Wang; Pengcheng Shi; Maximilian Rokuss; et al. (CoRR, 2025)

Bridging vision language model (VLM) evaluation gaps with a framework for scalable and cost-effective benchmark generation. - Tim Rädsch; Leon D. Mayer; Simon Pavicic; A. Emre Kavur; Marcel Knopp; Baris Öztürk; Klaus H. Maier-Hein; Paul F. Jaeger; Fabian Isensee; Annika Reinke; Lena Maier-Hein (CoRR, 2025)

Primus: Enforcing Attention Usage for 3D Medical Image Segmentation. - Tassilo Wald; Saikat Roy; Fabian Isensee; Constantin Ulrich; Sebastian Ziegler; Dasha Trofimova; Raphael Stock; Michael Baumgartner 001; Gregor Köhler; Klaus H. Maier-Hein (CoRR, 2025)

nnInteractive: Redefining 3D Promptable Segmentation. - Fabian Isensee; Maximilian Rokuss; Lars Krämer; Stefan Dinkelacker; Ashis Ravindran; Florian Stritzke; Benjamin Hamm; Tassilo Wald; Moritz Langenberg; Constantin Ulrich; Jonathan Deissler; Ralf Floca; et al. (CoRR, 2025)

Benchmark of Segmentation Techniques for Pelvic Fracture in CT and X-ray: Summary of the PENGWIN 2024 Challenge. - Yudi Sang; Yanzhen Liu; Sutuke Yibulayimu; Yunning Wang; Benjamin D. Killeen; Mingxu Liu; Ping-Cheng Ku; Ole Johannsen; Karol Gotkowski; Maximilian Zenk; Klaus H. Maier-Hein; Fabian Isensee; et al. (CoRR, 2025)

Large Scale Supervised Pretraining For Traumatic Brain Injury Segmentation. - Constantin Ulrich; Tassilo Wald; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2025)

nnLandmark: A Self-Configuring Method for 3D Medical Landmark Detection. - Alexandra Ertl; Shuhan Xiao; Stefan Denner; Robin Peretzke; David Zimmerer; Peter Neher; Fabian Isensee; Klaus H. Maier-Hein (CoRR, 2025)