Deep Learning for Medical Imaging: Learning Clinically Useful Information from Images

Project Information

Deep4MI

Grant agreement ID: 884622

DOI

10.3030/884622

EC signature date 11 September 2020

Start date 1 January 2021

End date 30 June 2026

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 2 499 900,00

EU contribution

€ 2 499 900,00

Coordinated by

KLINIKUM DER TECHNISCHEN UNIVERSITÄT MÜNCHEN (TUM KLINIKUM)
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (26)

Differentially Private Graph Neural Networks for Whole-Graph Classification

Author(s): Tamara T. Mueller, Johannes C. Paetzold, Chinmay Prabhakar, Dmitrii Usynin, Daniel Rueckert, Georgios Kaissis
Published in: IEEE Transactions on Pattern Analysis and Machine Intelligence, 2022, ISSN 1939-3539
Publisher: IEEE Computer Society
DOI: 10.1109/tpami.2022.3228315

Synthetic Optical Coherence Tomography Angiographs for Detailed Retinal Vessel Segmentation Without Human Annotations

Author(s): Linus Kreitner, Johannes C. Paetzold, Nikolaus Rauch, Chen Chen, Ahmed M. Hagag, Alaa E. Fayed, Sobha Sivaprasad, Sebastian Rausch, Julian Weichsel, Bjoern H. Menze, Matthias Harders, Benjamin Knier, Daniel Rueckert, Martin J. Menten
Published in: IEEE Transactions on Medical Imaging, Issue 43, 2024, Page(s) 2061-2073, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2024.3354408

CHeart: A Conditional Spatio-Temporal Generative Model for Cardiac Anatomy

Author(s): Mengyun Qiao; Shuo Wang; Huaqi Qiu; Antonio De Marvao; Declan P. O’Regan; Daniel Rueckert; Wenjia Bai
Published in: IEEE Transactions on Medical Imaging, 2023, ISSN 1558-254X
Publisher: IEEE Computer Society
DOI: 10.1109/tmi.2023.3331982

Topology Optimization in Medical Image Segmentation with Fast χ Euler Characteristic

Author(s): Liu Li, Qiang Ma, Cheng Oyang, Johannes C. Paetzold, Daniel Rueckert, Bernhard Kainz
Published in: IEEE Transactions on Medical Imaging, 2025, Page(s) 1-1, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2025.3589495

Specialized curricula for training vision language models in retinal image analysis

Author(s): Robbie Holland, Thomas R. P. Taylor, Christopher Holmes, Sophie Riedl, Julia Mai, Maria Patsiamanidi, Dimitra Mitsopoulou, Paul Hager, Philip Müller, Johannes C. Paetzold, Hendrik P. N. Scholl, Hrvoje Bogunović, Ursula Schmidt-Erfurth, Daniel Rueckert, Sobha Sivaprasad, Andrew J. Lotery, Martin J. Menten, null null, Toby Prevost, Lars Fritsche, Kristina Pfau, Maximilian Pfau
Published in: npj Digital Medicine, Issue 8, 2025, ISSN 2398-6352
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s41746-025-01893-8

Unlocking the diagnostic potential of electrocardiograms through information transfer from cardiac magnetic resonance imaging

Author(s): Özgün Turgut, Philip Müller, Paul Hager, Suprosanna Shit, Sophie Starck, Martin J. Menten, Eimo Martens, Daniel Rueckert
Published in: Medical Image Analysis, Issue 101, 2025, Page(s) 103451, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2024.103451

Enhancing MR image segmentation with realistic adversarial data augmentation

Author(s): Chen Chen, Chen Qin, Cheng Ouyang, Zeju Li, Shuo Wang, Huaqi Qiu, Liang Chen, Giacomo Tarroni, Wenjia Bai, Daniel Rueckert
Published in: Medical Image Analysis, 2022, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2022.102597

Weakly Supervised Object Detection in Chest X-Rays With Differentiable ROI Proposal Networks and Soft ROI Pooling

Author(s): Philip Müller, Felix Meissen, Georgios Kaissis, Daniel Rueckert
Published in: IEEE Transactions on Medical Imaging, Issue 44, 2025, Page(s) 221-231, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2024.3435015

Deformable image registration of dark‐field chest radiographs for functional lung assessment

Author(s): Fabian Drexel, Vasiliki Sideri‐Lampretsa, Henriette Bast, Alexander W. Marka, Thomas Koehler, Florian T. Gassert, Daniela Pfeiffer, Daniel Rueckert, Franz Pfeiffer
Published in: Medical Physics, Issue 52, 2025, ISSN 0094-2405
Publisher: American Association of Physicists in Medicine
DOI: 10.1002/mp.18023

Motion-Compensated MR CINE Reconstruction With Reconstruction-Driven Motion Estimation

Author(s): Jiazhen Pan, Wenqi Huang, Daniel Rueckert, Thomas Küstner, Kerstin Hammernik
Published in: IEEE Transactions on Medical Imaging, Issue 43, 2024, Page(s) 2420-2433, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2024.3364504

Using UK Biobank data to establish population-specific atlases from whole body MRI

Author(s): Sophie Starck, Vasiliki Sideri-Lampretsa, Jessica J. M. Ritter, Veronika A. Zimmer, Rickmer Braren, Tamara T. Mueller, Daniel Rueckert
Published in: Communications Medicine, Issue 4, 2024, ISSN 2730-664X
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s43856-024-00670-0

Diff-Def: Diffusion-Generated Deformation Fields for Conditional Atlases

Author(s): Sophie Starck, Vasiliki Sideri-Lampretsa, Bernhard Kainz, Martin J. Menten, Tamara T. Mueller, Daniel Rueckert
Published in: IEEE Transactions on Medical Imaging, 2025, Page(s) 1-1, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2025.3595421

A deep learning method for replicate-based analysis of chromosome conformation contacts using Siamese neural networks

Author(s): Ediem Al-jibury, James W. D. King, Ya Guo, Boris Lenhard, Amanda G. Fisher, Matthias Merkenschlager, Daniel Rueckert
Published in: Nature Communications, Issue 14, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-40547-9

Unrolled and rapid motion-compensated reconstruction for cardiac CINE MRI

Author(s): Jiazhen Pan; Manal Hamdi; Wenqi Huang; Kerstin Hammernik; Thomas Kuestner; Daniel Rueckert
Published in: Medical Image Analysis, 2024, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2023.103017

Reconciling privacy and accuracy in AI for medical imaging

Author(s): Alexander Ziller, Tamara T. Mueller, Simon Stieger, Leonhard F. Feiner, Johannes Brandt, Rickmer Braren, Daniel Rueckert, Georgios Kaissis
Published in: Nature Machine Intelligence, Issue 6, 2024, Page(s) 764-774, ISSN 2522-5839
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s42256-024-00858-y

Self-supervised feature learning for cardiac Cine MR image reconstruction

Author(s): Siying Xu, Marcel Früh, Kerstin Hammernik, Andreas Lingg, Jens Kübler, Patrick Krumm, Daniel Rueckert, Sergios Gatidis, Thomas Küstner
Published in: IEEE Transactions on Medical Imaging, 2025, Page(s) 1-1, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2025.3570226

FUTURE-AI: international consensus guideline for trustworthy and deployable artificial intelligence in healthcare

Author(s): Karim Lekadir, Alejandro F Frangi, Antonio R Porras, Ben Glocker, Celia Cintas, Curtis P Langlotz, Eva Weicken, Folkert W Asselbergs, Fred Prior, Gary S Collins, Georgios Kaissis, Gianna Tsakou, Irène Buvat, Jayashree Kalpathy-Cramer, John Mongan, Julia A Schnabel, Kaisar Kushibar, Katrine Riklund, Kostas Marias, Lameck M Amugongo, Lauren A Fromont, Lena Maier-Hein, Leonor Cerdá-Alberich, Luis M
Published in: BMJ, 2025, Page(s) e081554, ISSN 1756-1833
Publisher: BMJ
DOI: 10.1136/bmj-2024-081554

CortexODE: Learning Cortical Surface Reconstruction by Neural ODEs

Author(s): Qiang Ma, Liu Li, Emma C Robinson, Bernhard Kainz, Daniel Rueckert, Amir Alansary
Published in: IEEE Transactions on Medical Imaging, 2022, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2022.3206221

DeepMesh: Mesh-based Cardiac Motion Tracking using Deep Learning

Author(s): Qingjie Meng; Wenjia Bai; Declan P O’Regan; Daniel Rueckert
Published in: IEEE Transactions on Medical Imaging, 2023, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2023.3340118

Causality-inspired Single-source Domain Generalization for Medical Image Segmentation

Author(s): Cheng Ouyang, Chen Chen, Surui Li, Zeju Li, Chen Qin, Wenjia Bai, Daniel Rueckert
Published in: IEEE Transactions on Medical Imaging, 2022, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2022.3224067

AI-driven preclinical disease risk assessment using imaging in UK biobank

Author(s): Dmitrii Seletkov, Sophie Starck, Tamara T. Mueller, Yundi Zhang, Lisa Steinhelfer, Daniel Rueckert, Rickmer Braren
Published in: npj Digital Medicine, Issue 8, 2025, ISSN 2398-6352
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s41746-025-01771-3

The Developing Human Connectome Project: A fast deep learning-based pipeline for neonatal cortical surface reconstruction

Author(s): Qiang Ma, Kaili Liang, Liu Li, Saga Masui, Yourong Guo, Chiara Nosarti, Emma C. Robinson, Bernhard Kainz, Daniel Rueckert
Published in: Medical Image Analysis, Issue 100, 2024, Page(s) 103394, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2024.103394

Preserving fairness and diagnostic accuracy in private large-scale AI models for medical imaging

Author(s): Soroosh Tayebi Arasteh, Alexander Ziller, Christiane Kuhl, Marcus Makowski, Sven Nebelung, Rickmer Braren, Daniel Rueckert, Daniel Truhn, Georgios Kaissis
Published in: Communications Medicine, Issue 4, 2024, ISSN 2730-664X
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/s43856-024-00462-6

Self-Supervised Motion-Corrected Image Reconstruction Network for 4D Magnetic Resonance Imaging of the Body Trunk

Author(s): Thomas Küstner, Jiazhen Pan, Christopher Gilliam, Haikun Qi, Gastao Cruz, Kerstin Hammernik, Thierry Blu, Daniel Rueckert, René Botnar, Claudia Prieto and Sergios Gatidis
Published in: APSIPA Transactions on Signal and Information Processing, 2022, ISSN 2048-7703
Publisher: Cambridge University Press
DOI: 10.1561/116.00000039

Retinal small vessel pathology is associated with disease burden in multiple sclerosis

Author(s): Rebecca Wicklein, Linus Kreitner, Anna Wild, Lilian Aly, Daniel Rueckert, Bernhard Hemmer, Thomas Korn, Martin J Menten, Benjamin Knier
Published in: Multiple Sclerosis Journal, Issue 30, 2025, Page(s) 812-819, ISSN 1352-4585
Publisher: SAGE Publications
DOI: 10.1177/13524585241247775

Evaluation and mitigation of the limitations of large language models in clinical decision-making

Author(s): Paul Hager, Friederike Jungmann, Robbie Holland, Kunal Bhagat, Inga Hubrecht, Manuel Knauer, Jakob Vielhauer, Marcus Makowski, Rickmer Braren, Georgios Kaissis, Daniel Rueckert
Published in: Nature Medicine, Issue 30, 2024, Page(s) 2613-2622, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-024-03097-1

Conference proceedings (8)

Neural Implicit k-Space for Binning-Free Non-Cartesian Cardiac MR Imaging

Author(s): Wenqi Huang, Hongwei Bran Li, Jiazhen Pan, Gastao Cruz, Daniel Rueckert, Kerstin Hammernik
Published in: Information Processing in Medical Imaging, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-34048-2_42

Single-subject Multi-contrast MRI Super-resolution via Implicit Neural Representations

Author(s): Julian McGinnis, Suprosanna Shit, Hongwei Bran Li, Vasiliki Sideri-Lampretsa, Robert Graf, Maik Dannecker, Jiazhen Pan, Nil Stolt-Ansó, Mark Mühlau, Jan S. Kirschke, Daniel Rueckert & Benedikt Wiestler
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2023, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-43993-3_17

Learning-Based and Unrolled Motion-Compensated Reconstruction for Cardiac MR CINE Imaging

Author(s): Jiazhen Pan, Daniel Rueckert, Thomas Küstner, Kerstin Hammernik
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2022, 2022
Publisher: Springer
DOI: 10.1007/978-3-031-16446-0_65

Propagation and Attribution of Uncertainty in Medical Imaging Pipelines

Author(s): Leonhard F. Feiner, Martin J. Menten, Kerstin Hammernik, Paul Hager, Wenqi Huang, Daniel Rueckert, Rickmer F. Braren, Georgios Kaissis
Published in: International Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-44336-7_1

Exploiting Segmentation Labels and Representation Learning to Forecast Therapy Response of PDAC Patients

Author(s): Ziller, Alexander; Erdur, Ayhan Can; Jungmann, Friederike; Rueckert, Daniel; Braren, Rickmer; Kaissis, Georgios
Published in: IEEE International Symposium on Biomedical Imaging, 2023
Publisher: IEEE Computer Society
DOI: 10.1109/isbi53787.2023.10230324

Efficient Image Registration Network for Non-Rigid Cardiac Motion Estimation

Author(s): Jiazhen Pan, Daniel Rueckert, Thomas Küstner, Kerstin Hammernik
Published in: International Workshop on Machine Learning for Medical Image Reconstruction, 2021
Publisher: Springer
DOI: 10.1007/978-3-030-88552-6_2

Global k-Space Interpolation for Dynamic MRI Reconstruction Using Masked Image Modeling

Author(s): Jiazhen Pan, Suprosanna Shit, Özgün Turgut, Wenqi Huang, Hongwei Bran Li, Nil Stolt-Ansó, Thomas Küstner, Kerstin Hammernik, Daniel Rueckert
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2023, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-43999-5_22

Body Fat Estimation from Surface Meshes Using Graph Neural Networks.

Author(s): Tamara T. Mueller, Siyu Zhou, Sophie Starck, Friederike Jungmann, Alexander Ziller, Orhun Aksoy, Danylo Movchan, Rickmer Braren, Georgios Kaissis, Daniel Rueckert
Published in: Shape in Medical Imaging, 2023
Publisher: Springer
DOI: 10.1007/978-3-031-46914-5_9

Book chapters (4)

Subspace Implicit Neural Representations for Real-Time Cardiac Cine MR Imaging

Author(s): Wenqi Huang, Veronika Spieker, Siying Xu, Gastao Cruz, Claudia Prieto, Julia A. Schnabel, Kerstin Hammernik, Thomas Kuestner, Daniel Rueckert
Published in: Lecture Notes in Computer Science, Information Processing in Medical Imaging, 2025, Page(s) 168-183
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-96628-6_12

ChEX: Interactive Localization and Region Description in Chest X-Rays

Author(s): Philip Müller, Georgios Kaissis, Daniel Rueckert
Published in: Lecture Notes in Computer Science, Computer Vision – ECCV 2024, 2024, Page(s) 92-111
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-72664-4_6

Whole Heart 3D+T Representation Learning Through Sparse 2D Cardiac MR Images

Author(s): Yundi Zhang, Chen Chen, Suprosanna Shit, Sophie Starck, Daniel Rueckert, Jiazhen Pan
Published in: Lecture Notes in Computer Science, Medical Image Computing and Computer Assisted Intervention – MICCAI 2024, 2024, Page(s) 359-369
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-72378-0_34

Self-supervised k-Space Regularization for Motion-Resolved Abdominal MRI Using Neural Implicit k-Space Representations

Author(s): Veronika Spieker, Hannah Eichhorn, Jonathan K. Stelter, Wenqi Huang, Rickmer F. Braren, Daniel Rueckert, Francisco Sahli Costabal, Kerstin Hammernik, Claudia Prieto, Dimitrios C. Karampinos, Julia A. Schnabel
Published in: Lecture Notes in Computer Science, Medical Image Computing and Computer Assisted Intervention – MICCAI 2024, 2024, Page(s) 614-624
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-031-72104-5_59