Groupwise Simultaneous Manifold Alignment for High-Resolution Dynamic MR Imaging of Respiratory Motion. - Christian F. Baumgartner; Christoph Kolbitsch; Jamie McClelland; Daniel Rueckert; Andrew P. King (IPMI, 2013)

The Estimation of Free-Water Corrected Diffusion Tensors. - Ofer Pasternak; Klaus H. Maier-Hein; Christian F. Baumgartner; Martha Elizabeth Shenton; Yogesh Rathi; Carl-Fredrik Westin (Visualization and Processing of Tensors and Higher Order Descriptors for Multi-Valued Data, 2014)

Autoadaptive motion modelling. - Christian F. Baumgartner; Christoph Kolbitsch; Jamie R. McClelland; Daniel Rueckert; Andy P. King (ISBI, 2014)

High-resolution dynamic MR imaging of the thorax for respiratory motion correction of PET using groupwise manifold alignment. - Christian F. Baumgartner; Christoph Kolbitsch; Daniel R. Balfour; Paul K. Marsden; Jamie R. McClelland; Daniel Rueckert; Andrew P. King (Medical Image Anal., 2014)

Self-Aligning Manifolds for Matching Disparate Medical Image Datasets. - Christian F. Baumgartner; Alberto Gómez 002; Lisa M. Koch; Richard James Housden; Christoph Kolbitsch; Jamie R. McClelland; Daniel Rueckert; Andy P. King (IPMI, 2015)

Real-Time Standard Scan Plane Detection and Localisation in Fetal Ultrasound Using Fully Convolutional Neural Networks. - Christian F. Baumgartner; Konstantinos Kamnitsas; Jacqueline Matthew; Sandra Smith; Bernhard Kainz; Daniel Rueckert (MICCAI (2), 2016)

Real-Time Detection and Localisation of Fetal Standard Scan Planes in 2D Freehand Ultrasound. - Christian F. Baumgartner; Konstantinos Kamnitsas; Jacqueline Matthew; Tara P. Fletcher; Sandra Smith; Lisa M. Koch; Bernhard Kainz; Daniel Rueckert (CoRR, 2016)

Compositional neural-network modeling of complex analog circuits. - Ramin M. Hasani; Dieter Haerle; Christian F. Baumgartner; Alessio R. Lomuscio; Radu Grosu (IJCNN, 2017)

Unsupervised Domain Adaptation in Brain Lesion Segmentation with Adversarial Networks. - Konstantinos Kamnitsas; Christian F. Baumgartner; Christian Ledig; Virginia F. J. Newcombe; Joanna P. Simpson; Andrew D. Kane; David K. Menon; Aditya V. Nori; Antonio Criminisi; Daniel Rueckert; Ben Glocker (IPMI, 2017)

An Exploration of 2D and 3D Deep Learning Techniques for Cardiac MR Image Segmentation. - Christian F. Baumgartner; Lisa M. Koch; Marc Pollefeys; Ender Konukoglu (STACOM@MICCAI, 2017)

MR image reconstruction using the learned data distribution as prior. - Kerem Can Tezcan; Christian F. Baumgartner; Ender Konukoglu (CoRR, 2017)

Autoadaptive motion modelling for MR-based respiratory motion estimation. - Christian F. Baumgartner; Christoph Kolbitsch; Jamie R. McClelland; Daniel Rueckert; Andrew P. King (Medical Image Anal., 2017)

SonoNet: Real-Time Detection and Localisation of Fetal Standard Scan Planes in Freehand Ultrasound. - Christian F. Baumgartner; Konstantinos Kamnitsas; Jacqueline Matthew; Tara P. Fletcher; Sandra Smith; Lisa M. Koch; Bernhard Kainz; Daniel Rueckert (IEEE Trans. Medical Imaging, 2017)

High-Resolution Self-Gated Dynamic Abdominal MRI Using Manifold Alignment. - Xin Chen 003; Muhammad Usman 014; Christian F. Baumgartner; Daniel R. Balfour; Paul K. Marsden; Andrew J. Reader; Claudia Prieto; Andrew P. King (IEEE Trans. Medical Imaging, 2017)

Fully Convolutional Networks in Medical Imaging: Applications to Image Enhancement and Recognition. - Christian F. Baumgartner; Ozan Oktay; Daniel Rueckert (Deep Learning and Convolutional Neural Networks for Medical Image Computing, 2017)

Visual Feature Attribution Using Wasserstein GANs. - Christian F. Baumgartner; Lisa M. Koch; Kerem Can Tezcan; Jia Xi Ang; Ender Konukoglu (CVPR, 2018)

Human-level Performance On Automatic Head Biometrics In Fetal Ultrasound Using Fully Convolutional Neural Networks. - Matthew Sinclair; Christian F. Baumgartner; Jacqueline Matthew; Wenjia Bai; Juan Cerrolaza Martinez; Yuanwei Li; Sandra Smith; Caroline L. Knight; Bernhard Kainz; Joseph V. Hajnal; Andrew P. King; Daniel Rueckert (EMBC, 2018)

Learning to Segment Medical Images with Scribble-Supervision Alone. - Yigit Baran Can; Krishna Chaitanya; Basil Mustafa; Lisa M. Koch; Ender Konukoglu; Christian F. Baumgartner (DLMIA/ML-CDS@MICCAI, 2018)

A Lifelong Learning Approach to Brain MR Segmentation Across Scanners and Protocols. - Neerav Karani; Krishna Chaitanya; Christian F. Baumgartner; Ender Konukoglu (MICCAI (1), 2018)

Combining Heterogeneously Labeled Datasets For Training Segmentation Networks. - Jana Kemnitz; Christian F. Baumgartner; Wolfgang Wirth; Felix Eckstein; Sebastian K. Eder; Ender Konukoglu (MLMI@MICCAI, 2018)

Automatic Shadow Detection in 2D Ultrasound Images. - Qingjie Meng; Christian F. Baumgartner; Matthew Sinclair; James Housden; Martin Rajchl; Alberto Gómez 002; Benjamin Hou; Nicolas Toussaint; Veronika A. M. Zimmer; Jeremy Tan; Jacqueline Matthew; Daniel Rueckert; et al. (DATRA/PIPPI@MICCAI, 2018)

Multi-Atlas Segmentation Using Partially Annotated Data: Methods and Annotation Strategies. - Lisa M. Koch; Martin Rajchl; Wenjia Bai; Christian F. Baumgartner; Tong Tong 001; Jonathan Passerat-Palmbach; Paul Aljabar; Daniel Rueckert (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)

Semi-supervised and Task-Driven Data Augmentation. - Krishna Chaitanya; Neerav Karani; Christian F. Baumgartner; Anton S. Becker; Olivio Donati; Ender Konukoglu (IPMI, 2019)

PHiSeg: Capturing Uncertainty in Medical Image Segmentation. - Christian F. Baumgartner; Kerem Can Tezcan; Krishna Chaitanya; Andreas M. Hötker; Urs J. Muehlematter; Khoschy Schawkat; Anton S. Becker; Olivio Donati; Ender Konukoglu (MICCAI (2), 2019)

A Partially Reversible U-Net for Memory-Efficient Volumetric Image Segmentation. - Robin Brügger; Christian F. Baumgartner; Ender Konukoglu (MICCAI (3), 2019)

MR Image Reconstruction Using Deep Density Priors. - Kerem Can Tezcan; Christian F. Baumgartner; Roger Luechinger; Klaas P. Pruessmann; Ender Konukoglu (IEEE Trans. Medical Imaging, 2019)

Automated quantification of myocardial tissue characteristics from native T1 mapping using neural networks with Bayesian inference for uncertainty-based quality-control. - Esther Puyol-Antón; Bram Ruijsink; Christian F. Baumgartner; Matthew Sinclair; Ender Konukoglu; Reza Razavi; Andrew P. King (CoRR, 2020)

Semi-supervised Task-driven Data Augmentation for Medical Image Segmentation. - Krishna Chaitanya; Neerav Karani; Christian F. Baumgartner; Anton S. Becker; Olivio Donati; Ender Konukoglu (CoRR, 2020)

Sampling possible reconstructions of undersampled acquisitions in MR imaging. - Kerem Can Tezcan; Christian F. Baumgartner; Ender Konukoglu (CoRR, 2020)

Semi-supervised task-driven data augmentation for medical image segmentation. - Krishna Chaitanya; Neerav Karani; Christian F. Baumgartner; Ertunc Erdil; Anton S. Becker; Olivio Donati; Ender Konukoglu (Medical Image Anal., 2021)

Adversarial Robustness of MR Image Reconstruction Under Realistic Perturbations. - Jan Nikolas Morshuis; Sergios Gatidis; Matthias Hein 001; Christian F. Baumgartner (MLMIR@MICCAI, 2022)

Sampling Possible Reconstructions of Undersampled Acquisitions in MR Imaging With a Deep Learned Prior. - Kerem Can Tezcan; Neerav Karani; Christian F. Baumgartner; Ender Konukoglu (IEEE Trans. Medical Imaging, 2022)

Uncertainty Estimation and Propagation in Accelerated MRI Reconstruction. - Paul Fischer; Thomas Küstner; Christian F. Baumgartner (UNSURE@MICCAI, 2023)

Right for the Wrong Reason: Can Interpretable ML Techniques Detect Spurious Correlations? - Susu Sun; Lisa M. Koch; Christian F. Baumgartner (MICCAI (2), 2023)

Sparse Activations for Interpretable Disease Grading. - Kerol R. Djoumessi Donteu; Indu Ilanchezian; Laura Kühlewein; Hanna Faber; Christian F. Baumgartner; Bubacarr Bah; Philipp Berens; Lisa M. Koch (MIDL, 2023)

Inherently Interpretable Multi-Label Classification Using Class-Specific Counterfactuals. - Susu Sun; Stefano Woerner; Andreas K. Maier; Lisa M. Koch; Christian F. Baumgartner (MIDL, 2023)

Multiscale Metamorphic VAE for 3D Brain MRI Synthesis. - Jaivardhan Kapoor; Jakob H. Macke; Christian F. Baumgartner (CoRR, 2023)

Studying Therapy Effects and Disease Outcomes in Silico using Artificial Counterfactual Tissue Samples. - Martin Paulikat; Christian M. Schürch; Christian F. Baumgartner (CoRR, 2023)

Deep Hypothesis Tests Detect Clinically Relevant Subgroup Shifts in Medical Images. - Lisa M. Koch; Christian M. Schürch; Christian F. Baumgartner; Arthur Gretton; Philipp Berens (CoRR, 2023)

Unsupervised Anomaly Detection using Aggregated Normative Diffusion. - Alexander Frötscher; Jaivardhan Kapoor; Thomas Wolfers; Christian F. Baumgartner (CoRR, 2023)

Subgroup-Specific Risk-Controlled Dose Estimation in Radiotherapy. - Paul Fischer; Hannah Willms; Moritz Schneider; Daniela Thorwarth; Michael Muehlebach; Christian F. Baumgartner (MICCAI (10), 2024)

Segmentation-Guided MRI Reconstruction for Meaningfully Diverse Reconstructions. - Jan Nikolas Morshuis; Matthias Hein 001; Christian F. Baumgartner (DGM4MICCAI@MICCAI, 2024)

PULPo: Probabilistic Unsupervised Laplacian Pyramid Registration. - Leonard Siegert; Paul Fischer; Mattias P. Heinrich; Christian F. Baumgartner (MICCAI (2), 2024)

Navigating Data Scarcity Using Foundation Models: A Benchmark of Few-Shot and Zero-Shot Learning Approaches in Medical Imaging. - Stefano Woerner; Christian F. Baumgartner (MedAGI@MICCAI, 2024)

Conformal Performance Range Prediction for Segmentation Output Quality Control. - Anna M. Wundram; Paul Fischer; Michael Mühlebach; Lisa M. Koch; Christian F. Baumgartner (UNSURE@MICCAI, 2024)

Leveraging Probabilistic Segmentation Models for Improved Glaucoma Diagnosis: A Clinical Pipeline Approach. - Anna M. Wundram; Paul Fischer; Stephan Wunderlich; Hanna Faber; Lisa M. Koch; Philipp Berens; Christian F. Baumgartner (MIDL, 2024)

A comprehensive and easy-to-use multi-domain multi-task medical imaging meta-dataset (MedIMeta). - Stefano Woerner; Arthur Jaques; Christian F. Baumgartner (CoRR, 2024)

Attri-Net: A Globally and Locally Inherently Interpretable Model for Multi-Label Classification Using Class-Specific Counterfactuals. - Susu Sun; Stefano Woerner; Andreas K. Maier; Lisa M. Koch; Christian F. Baumgartner (CoRR, 2024)

Editorial for the Special Issue on the 2022 Medical Imaging with Deep Learning Conference. - Shadi Albarqouni; Christian F. Baumgartner; Qi Dou 001; Ender Konukoglu; Bjoern H. Menze; Archana Venkataraman (Medical Image Anal., 2024)

Distribution shift detection for the postmarket surveillance of medical AI algorithms: a retrospective simulation study. - Lisa M. Koch; Christian F. Baumgartner; Philipp Berens (npj Digit. Medicine, 2024)

Label-free Concept Based Multiple Instance Learning for Gigapixel Histopathology. - Susu Sun; Leslie Tessier; Frédérique Meeuwsen; Clément Grisi; Dominique van Midden; Geert Litjens 001; Christian F. Baumgartner (CoRR, 2025)

Prototype-Based Multiple Instance Learning for Gigapixel Whole Slide Image Classification. - Susu Sun; Dominique van Midden; Geert Litjens 001; Christian F. Baumgartner (CoRR, 2025)

Subgroup Performance Analysis in Hidden Stratifications. - Alceu Bissoto; Trung-Dung Hoang; Tim Flühmann; Susu Sun; Christian F. Baumgartner; Lisa M. Koch (CoRR, 2025)

Mind the Detail: Uncovering Clinically Relevant Image Details in Accelerated MRI with Semantically Diverse Reconstructions. - Jan Nikolas Morshuis; Christian Schlarmann; Thomas Küstner; Christian F. Baumgartner; Matthias Hein 001 (CoRR, 2025)

Is Uncertainty Quantification a Viable Alternative to Learned Deferral? - Anna M. Wundram; Christian F. Baumgartner (CoRR, 2025)