Quantitative analysis of airway abnormalities in CT. - Jens Petersen; Pechin Lo; Mads Nielsen; Goutham Edula; Haseem Ashraf; Asger Dirksen; Marleen de Bruijne (Computer-Aided Diagnosis, 2010)

Optimal Graph Based Segmentation Using Flow Lines with Application to Airway Wall Segmentation. - Jens Petersen; Mads Nielsen; Pechin Lo; Zaigham Saghir; Asger Dirksen; Marleen de Bruijne (IPMI, 2011)

Dissimilarity-Based Classification of Anatomical Tree Structures. - Lauge Sørensen; Pechin Lo; Asger Dirksen; Jens Petersen; Marleen de Bruijne (IPMI, 2011)

Carotid Artery Wall Segmentation by Coupled Surface Graph Cuts. - Andres Arias; Jens Petersen; Arna van Engelen; Hui Tang; Mariana Selwaness; Jacqueline C. M. Witteman; Aad van der Lugt; Wiro J. Niessen; Marleen de Bruijne (MCV, 2012)

A Hierarchical Scheme for Geodesic Anatomical Labeling of Airway Trees. - Aasa Feragen; Jens Petersen; Megan Owen; Pechin Lo; Laura H. Thomsen; Mathilde M. W. Wille; Asger Dirksen; Marleen de Bruijne (MICCAI (3), 2012)

Tree-Space Statistics and Approximations for Large-Scale Analysis of Anatomical Trees. - Aasa Feragen; Megan Owen; Jens Petersen; Mathilde M. W. Wille; Laura H. Thomsen; Asger Dirksen; Marleen de Bruijne (IPMI, 2013)

Geometric Tree Kernels: Classification of COPD from Airway Tree Geometry. - Aasa Feragen; Jens Petersen; Dominik G. Grimm; Asger Dirksen; Jesper Johannes Holst Pedersen; Karsten M. Borgwardt; Marleen de Bruijne (IPMI, 2013)

Carotid Artery Lumen Segmentation in 3D Free-Hand Ultrasound Images Using Surface Graph Cuts. - Andrés M. Arias Lorza; Diego D. B. Carvalho; Jens Petersen; Anouk C. van Dijk; Aad van der Lugt; Wiro J. Niessen; Stefan Klein 001; Marleen de Bruijne (MICCAI (2), 2013)

Quantitative Airway Analysis in Longitudinal Studies Using Groupwise Registration and 4D Optimal Surfaces. - Jens Petersen; Marc Modat; Manuel Jorge Cardoso; Asger Dirksen; Sébastien Ourselin; Marleen de Bruijne (MICCAI (2), 2013)

Scalable kernels for graphs with continuous attributes. - Aasa Feragen; Niklas Kasenburg; Jens Petersen; Marleen de Bruijne; Karsten M. Borgwardt (NIPS, 2013)

Optimal surface segmentation using flow lines to quantify airway abnormalities in chronic obstructive pulmonary disease. - Jens Petersen; Mads Nielsen; Pechin Lo; Lars Haug Nordenmark; Jesper Johannes Holst Pedersen; Mathilde Marie Winkler Wille; Asger Dirksen; Marleen de Bruijne (Medical Image Anal., 2014)

Geodesic Atlas-Based Labeling of Anatomical Trees: Application and Evaluation on Airways Extracted From CT. - Aasa Feragen; Jens Petersen; Megan Owen; Pechin Lo; Laura Hohwu Thomsen; Mathilde Marie Winkler Wille; Asger Dirksen; Marleen de Bruijne (IEEE Trans. Medical Imaging, 2015)

Extraction of airway trees using multiple hypothesis tracking and template matching. - Raghavendra Selvan; Jens Petersen; Jesper Johannes Holst Pedersen; Marleen de Bruijne (CoRR, 2016)

Carotid Artery Wall Segmentation in Multispectral MRI by Coupled Optimal Surface Graph Cuts. - Andrés M. Arias Lorza; Jens Petersen; Arna van Engelen; Mariana Selwaness; Aad van der Lugt; Wiro J. Niessen; Marleen de Bruijne (IEEE Trans. Medical Imaging, 2016)

Quantification of Guidance Strategies in Online Interactive Semantic Segmentation of Glioblastoma MRI. - Jens Petersen; Sabine Heiland; Martin Bendszus; Jürgen Debus; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2017)

Effective user guidance in online interactive semantic segmentation. - Jens Petersen; Martin Bendszus; Jürgen Debus; Sabine Heiland; Klaus H. Maier-Hein (Computer-Aided Diagnosis, 2017)

Crowdsourced Emphysema Assessment. - Silas Nyboe Ørting; Veronika Cheplygina; Jens Petersen; Laura H. Thomsen; Mathilde M. W. Wille; Marleen de Bruijne (CVII-STENT/LABELS@MICCAI, 2017)

Extraction of Airways with Probabilistic State-Space Models and Bayesian Smoothing. - Raghavendra Selvan; Jens Petersen; Jesper Holst Pedersen; Marleen de Bruijne (GRAIL/MFCA/MICGen@MICCAI, 2017)

Automated Containerized Medical Image Processing Based on MITK and Python - A Modular System to Implement Medical Image Processing Pipelines and Visualize Meta Data. - Caspar J. Goch; Jasmin Metzger; Martin Hettich; André Klein; Tobias Norajitra; Michael Götz; Jens Petersen; Klaus H. Maier-Hein; Marco Nolden (Bildverarbeitung für die Medizin, 2018)

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: Leveraging Open Source Software to Close Translational Gaps in Medical Image Computing. - Jens Petersen; Sabine Heiland; Martin Bendszus; Jürgen Debus; Marco Nolden; Caspar J. Goch; Klaus Hermann Maier-Hein (Bildverarbeitung für die Medizin, 2018)

Detecting emphysema with multiple instance learning. - Silas Nyboe Ørting; Jens Petersen; Laura H. Thomsen; Mathilde M. W. Wille; Marleen de Bruijne (ISBI, 2018)

Feature Learning Based on Visual Similarity Triplets in Medical Image Analysis: A Case Study of Emphysema in Chest CT Scans. - Silas Nyboe Ørting; Jens Petersen; Veronika Cheplygina; Laura H. Thomsen; Mathilde M. W. Wille; Marleen de Bruijne (CVII-STENT/LABELS@MICCAI, 2018)

Mean Field Network Based Graph Refinement with Application to Airway Tree Extraction. - Raghavendra Selvan; Max Welling; Jesper Holst Pedersen; Jens Petersen; Marleen de Bruijne (MICCAI (2), 2018)

Extraction of Airways using Graph Neural Networks. - Raghavendra Selvan; Thomas N. Kipf; Max Welling; Jesper Holst Pedersen; Jens Petersen; Marleen de Bruijne (CoRR, 2018)

Extracting Tree-structures in CT data by Tracking Multiple Statistically Ranked Hypotheses. - Raghavendra Selvan; Jens Petersen; Jesper Holst Pedersen; Marleen de Bruijne (CoRR, 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)

Graph Refinement based Tree Extraction using Mean-Field Networks and Graph Neural Networks. - Raghavendra Selvan; Thomas N. Kipf; Max Welling; Jesper Holst Pedersen; Jens Petersen; Marleen de Bruijne (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)

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)

A Cross-Center Smoothness Prior for Variational Bayesian Brain Tissue Segmentation. - Wouter M. Kouw; Silas N. Ørting; Jens Petersen; Kim Steenstrup Pedersen; Marleen de Bruijne (IPMI, 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)

Segmentation of Roots in Soil with U-Net. - Abraham George Smith; Jens Petersen; Raghavendra Selvan; Camilla Ruø Rasmussen (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)

High- and Low-level image component decomposition using VAEs for improved reconstruction and anomaly detection. - David Zimmerer; Jens Petersen; Klaus H. Maier-Hein (CoRR, 2019)

A Case for the Score: Identifying Image Anomalies using Variational Autoencoder Gradients. - David Zimmerer; Jens Petersen; Simon A. A. Kohl; Klaus H. Maier-Hein (CoRR, 2019)

Increasing Accuracy of Optimal Surfaces Using Min-Marginal Energies. - Jens Petersen; Andrés M. Arias Lorza; Raghavendra Selvan; Daniel Bos; Aad van der Lugt; Jesper Johannes Holst Pedersen; Mads Nielsen; Marleen de Bruijne (IEEE Trans. Medical Imaging, 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)

Graph refinement based airway extraction using mean-field networks and graph neural networks. - Raghavendra Selvan; Thomas Kipf; Max Welling; Antonio Garcia-Uceda Juarez; Jesper Holst Pedersen; Jens Petersen; Marleen de Bruijne (Medical Image Anal., 2020)

Learning to Quantify Emphysema Extent: What Labels Do We Need? - Silas Nyboe Ørting; Jens Petersen; Laura H. Thomsen; Mathilde M. W. Wille; Marleen de Bruijne (IEEE J. Biomed. Health Informatics, 2020)

Learning Distributions of Functions on a Continuous Time Domain - Jens Petersen (2020)

Segmenting Two-Dimensional Structures with Strided Tensor Networks. - Raghavendra Selvan; Erik B. Dam; Jens Petersen (IPMI, 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)

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)

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)

RootPainter3D: Interactive-machine-learning enables rapid and accurate contouring for radiotherapy. - Abraham George Smith; Jens Petersen; Cynthia Terrones-Campos; Anne Kiil Berthelsen; Nora Jarrett Forbes; Sune Darkner; Lena Specht; Ivan Richter Vogelius (CoRR, 2021)

Patch-based medical image segmentation using Quantum Tensor Networks. - Raghavendra Selvan; Erik B. Dam; Søren Alexander Flensborg; Jens Petersen (CoRR, 2021)

Unsupervised Anomaly Detection in the Wild. - David Zimmerer; Daniel Paech; Carsten T. Lüth; Jens Petersen; Gregor Köhler; Klaus H. Maier-Hein (Bildverarbeitung für die Medizin, 2022)

Interpreting Latent Spaces of Generative Models for Medical Images Using Unsupervised Methods. - Julian Schön; Raghavendra Selvan; Jens Petersen (DGM4MICCAI@MICCAI, 2022)

Robust hand tracking for surgical telestration. - Lucas-Raphael Müller; Jens Petersen; Amine Yamlahi; Philipp Wise; Tim J. Adler; Alexander Seitel; Karl-Friedrich Kowalewski; Beat Müller; Hannes Kenngott; Felix Nickel; Lena Maier-Hein (Int. J. Comput. Assist. Radiol. Surg., 2022)

Correction to: Robust hand tracking for surgical telestration. - Lucas-Raphael Müller; Jens Petersen; Amine Yamlahi; Philipp Wise; Tim J. Adler; Alexander Seitel; Karl-Friedrich Kowalewski; Beat Müller; Hannes Kenngott; Felix Nickel; Lena Maier-Hein (Int. J. Comput. Assist. Radiol. Surg., 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)

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)

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)

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)

A neural video codec with spatial rate-distortion control. - Noor Fathima Ghouse; Jens Petersen; Guillaume Sautière; Auke J. Wiggers; Reza Pourreza 002 (WACV, 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)

Explicit Temporal Embedding in Deep Generative Latent Models for Longitudinal Medical Image Synthesis. - Julian Schön; Raghavendra Selvan; Lotte Nygård; Ivan Richter Vogelius; Jens Petersen (CoRR, 2023)

Neural Image Compression with a Diffusion-Based Decoder. - Noor Fathima Ghouse; Jens Petersen; Auke J. Wiggers; Tianlin Xu; Guillaume Sautière (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)

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)

Localise to segment: crop to improve organ at risk segmentation accuracy. - Abraham George Smith; Denis Kutnár; Ivan Richter Vogelius; Sune Darkner; Jens Petersen (CoRR, 2023)

Prediction of post-radiotherapy recurrence volumes in head and neck squamous cell carcinoma using 3D U-Net segmentation. - Denis Kutnár; Ivan Richter Vogelius; Katrin Elisabet Håkansson; Jens Petersen; Jeppe Friborg; Lena Specht; Mogens Bernsdorf; Anita Gothelf; Claus Kristensen; Abraham George Smith (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)

Clockwork Diffusion: Efficient Generation With Model-Step Distillation. - Amirhossein Habibian; Amir Ghodrati; Noor Fathima; Guillaume Sautière; Risheek Garrepalli; Fatih Porikli; Jens Petersen (CVPR, 2024)

Enhancing Predictive Imaging Biomarker Discovery Through Treatment Effect Analysis. - Shuhan Xiao; Lukas Klein; Jens Petersen; Philipp Vollmuth; Paul F. Jaeger; Klaus H. Maier-Hein (WACV, 2025)

Collision Constraints and Diffeomorphisms: Dealing With Physics in Deformable Image Registration. - Thomas Alscher; Jens Petersen; François Lauze; Kenny Erleben; Sune Darkner (IEEE Access, 2025)

HQColon: A Hybrid Interactive Machine Learning Pipeline for High Quality Colon Labeling and Segmentation. - Martina Finocchiaro; Ronja Stern; Abraham George Smith; Jens Petersen; Kenny Erleben; Melanie Ganz (CoRR, 2025)

Gaussian Splatting is an Effective Data Generator for 3D Object Detection. - Farhad G. Zanjani; Davide Abati; Auke J. Wiggers; Dimitris Kalatzis; Jens Petersen; Hong Cai; Amirhossein Habibian (CoRR, 2025)

Scene-Aware Location Modeling for Data Augmentation in Automotive Object Detection. - Jens Petersen; Davide Abati; Amirhossein Habibian; Auke J. Wiggers (CoRR, 2025)

Controllable 3D Placement of Objects with Scene-Aware Diffusion Models. - Mohamed Omran; Dimitris Kalatzis; Jens Petersen; Amirhossein Habibian; Auke J. Wiggers (CoRR, 2025)

Interpretable Artificial Intelligence for Detecting Acute Heart Failure on Acute Chest CT Scans. - Silas Nyboe Ørting; Kristina Miger; Anne Sophie Overgaard Olesen; Mikael Ploug Boesen; Michael Brun Andersen; Jens Petersen; Olav W. Nielsen; Marleen de Bruijne (CoRR, 2025)