Jonas Ammeling

I am a research assistant and PhD student at the Technical University of Applied Sciences Ingolstadt. I received my Master’s degree in Statistics & Data Science from Leiden University in the Netherlands. My current work focuses on the development of deep learning applications in digital pathology and radiology. I am particularly interested in object detection methods, self-supervised learning, more user-centric approaches, and multimodal vision-language processing.

Publications:

2024

15.

Aubreville, Marc; Ganz, Jonathan; Ammeling, Jonas; Rosbach, Emely; Gehrke, Thomas; Scherzad, Agmal; Hackenberg, Stephan; Goncalves, Miguel

Prediction of tumor board procedural recommendations using large language models Journal Article

In: European Archives of Oto-Rhino-Laryngology, 2024, ISSN: 1434-4726.

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14.

Ganz, Jonathan; Ammeling, Jonas; Jabari, Samir; Breininger, Katharina; Aubreville, Marc

Re-identification from histopathology images Journal Article

In: Medical Image Analysis, pp. 103335, 2024, ISSN: 13618415.

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13.

Aubreville, Marc; Ganz, Jonathan; Ammeling, Jonas; Kaltenecker, Christopher; Bertram, Christof A.

Model-based Cleaning of the QUILT-1M Pathology Dataset for Text-Conditional Image Synthesis Proceedings Article

In: Medical Imaging with Deep Learning, Paris, France, 2024.

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12.

Aubreville, Marc; Stathonikos, Nikolas; Donovan, Taryn A.; Klopfleisch, Robert; Ammeling, Jonas; Ganz, Jonathan; Wilm, Frauke; Veta, Mitko; Jabari, Samir; Eckstein, Markus; Annuscheit, Jonas; Krumnow, Christian; Bozaba, Engin; Çayır, Sercan; Gu, Hongyan; Chen, Xiang ‘Anthony’; Jahanifar, Mostafa; Shephard, Adam; Kondo, Satoshi; Kasai, Satoshi; Kotte, Sujatha; Saipradeep, V. G.; Lafarge, Maxime W.; Koelzer, Viktor H.; Wang, Ziyue; Zhang, Yongbing; Yang, Sen; Wang, Xiyue; Breininger, Katharina; Bertram, Christof A.

Domain generalization across tumor types, laboratories, and species — Insights from the 2022 edition of the Mitosis Domain Generalization Challenge Journal Article

In: Medical Image Analysis, vol. 94, pp. 103155, 2024, ISSN: 13618415.

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11.

Krügel, Sebastian; Ammeling, Jonas; Aubreville, Marc; Fritz, Alexis; Kießig, Angelika; Uhl, Matthias

Perceived responsibility in AI-supported medicine Journal Article

In: AI & SOCIETY, 2024, ISSN: 0951-5666, 1435-5655.

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10.

Krügel, Sebastian; Ammeling, Jonas; Aubreville, Marc; Fritz, Alexis; Kießig, Angelika; Uhl, Matthias

Perceived responsibility in AI-supported medicine Journal Article

In: AI & SOCIETY, 2024, ISSN: 0951-5666, 1435-5655.

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9.

Aubreville, Marc; Pan, Zhaoya; Sievert, Matti; Ammeling, Jonas; Ganz, Jonathan; Oetter, Nicolai; Stelzle, Florian; Frenken, Ann-Kathrin; Breininger, Katharina; Goncalves, Miguel

Few Shot Learning for the Classification of Confocal Laser Endomicroscopy Images of Head and Neck Tumors Book Section

In: Maier, Andreas; Deserno, Thomas M.; Handels, Heinz; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2024, pp. 143–148, Springer Fachmedien Wiesbaden, Wiesbaden, 2024, ISBN: 9783658440367 9783658440374.

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8.

Ammeling, Jonas; Hecker, Moritz; Ganz, Jonathan; Donovan, Taryn A.; Klopfleisch, Robert; Bertram, Christof A.; Breininger, Katharina; Aubreville, Marc

Automated Mitotic Index Calculation via Deep Learning and Immunohistochemistry Book Section

In: Maier, Andreas; Deserno, Thomas M.; Handels, Heinz; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2024, pp. 123–128, Springer Fachmedien Wiesbaden, Wiesbaden, 2024, ISBN: 9783658440367 9783658440374.

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7.

Ganz, Jonathan; Puget, Chloé; Ammeling, Jonas; Parlak, Eda; Kiupel, Matti; Bertram, Christof A.; Breininger, Katharina; Klopfleisch, Robert; Aubreville, Marc

Assessment of Scanner Domain Shifts in Deep Multiple Instance Learning Book Section

In: Maier, Andreas; Deserno, Thomas M.; Handels, Heinz; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2024, pp. 137–142, Springer Fachmedien Wiesbaden, Wiesbaden, 2024, ISBN: 9783658440367 9783658440374.

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2023

6.

Ammeling, Jonas; Manger, Carina; Kwaka, Elias; Krügel, Sebastian; Uhl, Matthias; Kießig, Angelika; Fritz, Alexis; Ganz, Jonathan; Riener, Andreas; Bertram, Christof A.; Breininger, Katharina; Aubreville, Marc

Appealing but Potentially Biasing – Investigation of the Visual Representation of Segmentation Predictions by AI Recommender Systems for Medical Decision Making Proceedings Article

In: MuC ’23: Mensch und Computer 2023, pp. 330–335, ACM, Rapperswil Switzerland, 2023, ISBN: 9798400707711.

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5.

Aubreville, Marc; Wilm, Frauke; Stathonikos, Nikolas; Breininger, Katharina; Donovan, Taryn A.; Jabari, Samir; Veta, Mitko; Ganz, Jonathan; Ammeling, Jonas; Diest, Paul J. Van; Klopfleisch, Robert; Bertram, Christof A.

A comprehensive multi-domain dataset for mitotic figure detection Journal Article

In: Scientific Data, vol. 10, no. 1, pp. 484, 2023, ISSN: 2052-4463.

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4.

Ammeling, Jonas; Schmidt, Lars-Henning; Ganz, Jonathan; Niedermair, Tanja; Brochhausen-Delius, Christoph; Schulz, Christian; Breininger, Katharina; Aubreville, Marc

Attention-based Multiple Instance Learning for Survival Prediction on Lung Cancer Tissue Microarrays Book Section

In: Deserno, Thomas M.; Handels, Heinz; Maier, Andreas; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2023, pp. 220–225, Springer Fachmedien Wiesbaden, Wiesbaden, 2023, ISBN: 978-3-658-41656-0 978-3-658-41657-7, (Series Title: Informatik aktuell).

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3.

Aubreville, Marc; Ganz, Jonathan; Ammeling, Jonas; Donovan, Taryn A.; Fick, Rutger Hj.; Breininger, Katharina; Bertram, Christof A.

Deep Learning-based Subtyping of Atypical and Normal Mitoses using a Hierarchical Anchor-free Object Detector Book Section

In: Deserno, Thomas M.; Handels, Heinz; Maier, Andreas; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2023, pp. 189–195, Springer Fachmedien Wiesbaden, Wiesbaden, 2023, ISBN: 978-3-658-41656-0 978-3-658-41657-7, (Series Title: Informatik aktuell).

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2.

Ganz, Jonathan; Lipnik, Karoline; Ammeling, Jonas; Richter, Barbara; Puget, Chloé; Parlak, Eda; Diehl, Laura; Klopfleisch, Robert; Donovan, Taryn A.; Kiupel, Matti; Bertram, Christof A.; Breininger, Katharina; Aubreville, Marc

Deep Learning-based Automatic Assessment of AgNOR-scores in Histopathology Images Book Section

In: Deserno, Thomas M.; Handels, Heinz; Maier, Andreas; Maier-Hein, Klaus; Palm, Christoph; Tolxdorff, Thomas (Ed.): Bildverarbeitung für die Medizin 2023, pp. 226–231, Springer Fachmedien Wiesbaden, Wiesbaden, 2023, ISBN: 978-3-658-41656-0 978-3-658-41657-7, (Series Title: Informatik aktuell).

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1.

Ammeling, Jonas; Wilm, Frauke; Ganz, Jonathan; Breininger, Katharina; Aubreville, Marc

Reference Algorithms for the Mitosis Domain Generalization (MIDOG) 2022 Challenge Book Section

In: Sheng, Bin; Aubreville, Marc (Ed.): Mitosis Domain Generalization and Diabetic Retinopathy Analysis, vol. 13597, pp. 201–205, Springer Nature Switzerland, Cham, 2023, ISBN: 978-3-031-33657-7 978-3-031-33658-4, (Series Title: Lecture Notes in Computer Science).

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