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:

Aubreville, M., Stathonikos, N., Donovan, T. A., Klopfleisch, R., Ammeling, J., Ganz, J., Wilm, F., Veta, M., Jabari, S., Eckstein, M., Annuscheit, J., Krumnow, C., Bozaba, E., Çayır, S., Gu, H., Chen, X. ‘Anthony,’ Jahanifar, M., Shephard, A., Kondo, S., … Bertram, C. A. (2024). Domain generalization across tumor types, laboratories, and species — Insights from the 2022 edition of the Mitosis Domain Generalization Challenge. Medical Image Analysis, 94, 103155. https://doi.org/10.1016/j.media.2024.103155 Cite
Aubreville, M., Pan, Z., Sievert, M., Ammeling, J., Ganz, J., Oetter, N., Stelzle, F., Frenken, A.-K., Breininger, K., & Goncalves, M. (2024). Few Shot Learning for the Classification of Confocal Laser Endomicroscopy Images of Head and Neck Tumors. In A. Maier, T. M. Deserno, H. Handels, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2024 (pp. 143–148). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-44037-4_42 Cite
Ammeling, J., Hecker, M., Ganz, J., Donovan, T. A., Klopfleisch, R., Bertram, C. A., Breininger, K., & Aubreville, M. (2024). Automated Mitotic Index Calculation via Deep Learning and Immunohistochemistry. In A. Maier, T. M. Deserno, H. Handels, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2024 (pp. 123–128). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-44037-4_37 Cite
Ganz, J., Puget, C., Ammeling, J., Parlak, E., Kiupel, M., Bertram, C. A., Breininger, K., Klopfleisch, R., & Aubreville, M. (2024). Assessment of Scanner Domain Shifts in Deep Multiple Instance Learning. In A. Maier, T. M. Deserno, H. Handels, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2024 (pp. 137–142). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-44037-4_41 Cite
Ammeling, J., Manger, C., Kwaka, E., Krügel, S., Uhl, M., Kießig, A., Fritz, A., Ganz, J., Riener, A., Bertram, C. A., Breininger, K., & Aubreville, M. (2023). Appealing but Potentially Biasing – Investigation of the Visual Representation of Segmentation Predictions by AI Recommender Systems for Medical Decision Making. MuC ’23: Mensch Und Computer 2023, 330–335. https://doi.org/10.1145/3603555.3608561 Cite
Aubreville, M., Wilm, F., Stathonikos, N., Breininger, K., Donovan, T. A., Jabari, S., Veta, M., Ganz, J., Ammeling, J., Van Diest, P. J., Klopfleisch, R., & Bertram, C. A. (2023). A comprehensive multi-domain dataset for mitotic figure detection. Scientific Data, 10(1), 484. https://doi.org/10.1038/s41597-023-02327-4 Cite Download
Ammeling, J., Wilm, F., Ganz, J., Breininger, K., & Aubreville, M. (2023). Reference Algorithms for the Mitosis Domain Generalization (MIDOG) 2022 Challenge. In B. Sheng & M. Aubreville (Eds.), Mitosis Domain Generalization and Diabetic Retinopathy Analysis (Vol. 13597, pp. 201–205). Springer Nature Switzerland. https://doi.org/10.1007/978-3-031-33658-4_19 Cite
Ammeling, J., Schmidt, L.-H., Ganz, J., Niedermair, T., Brochhausen-Delius, C., Schulz, C., Breininger, K., & Aubreville, M. (2023). Attention-based Multiple Instance Learning for Survival Prediction on Lung Cancer Tissue Microarrays. In T. M. Deserno, H. Handels, A. Maier, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2023 (pp. 220–225). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-41657-7_48 Cite Download
Aubreville, M., Ganz, J., Ammeling, J., Donovan, T. A., Fick, R. Hj., Breininger, K., & Bertram, C. A. (2023). Deep Learning-based Subtyping of Atypical and Normal Mitoses using a Hierarchical Anchor-free Object Detector. In T. M. Deserno, H. Handels, A. Maier, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2023 (pp. 189–195). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-41657-7_40 Cite Download
Ganz, J., Lipnik, K., Ammeling, J., Richter, B., Puget, C., Parlak, E., Diehl, L., Klopfleisch, R., Donovan, T. A., Kiupel, M., Bertram, C. A., Breininger, K., & Aubreville, M. (2023). Deep Learning-based Automatic Assessment of AgNOR-scores in Histopathology Images. In T. M. Deserno, H. Handels, A. Maier, K. Maier-Hein, C. Palm, & T. Tolxdorff (Eds.), Bildverarbeitung für die Medizin 2023 (pp. 226–231). Springer Fachmedien Wiesbaden. https://doi.org/10.1007/978-3-658-41657-7_49 Cite Download