2025

One for All: A Unified Approach to Classification and Self-Explanation.

Mehdi Naouar, Yannick Vogt, Joschka Boedecker, Gabriel Kalweit, and Maria Kalweit. International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), 2025

Springer Nature Link

AI in modular concepts of natural killer cell therapy.

Yannick Vogt, Maria Kalweit, Maria Alieva, Evelyn Ullrich, Joschka Boedecker, and Gabriel Kalweit. In Natural Killer Cells, J. Zimmer and E. Ullrich. Springer, Berlin, Heidelberg, 2025

Frontiers

Leveraging a Foundation Model Zoo for Cell Similarity Search in Oncological Microscopy across Devices.

Gabriel Kalweit, Anusha Klett, Paula Silvestrini, Jens Rahnfeld, Mehdi Naouar, Yannick Vogt, Diana Infante, Rebecca Berger, Jesús Duque-Afonso, Tanja Nicole Hartmann, Marie Follo, Elitsa Bodurova-Spassova, Michael Lübbert, Roland Mertelsmann, Joschka Boedecker, Evelyn Ullrich, and Maria Kalweit. Frontiers in Oncology, 2025

Künstliche Intelligenz in der Krebstherapie.

Gabriel Kalweit, Maria Kalweit, Ignacio Mastroleo, Joschka Bödecker und Roland Mertelsmann. Künstliche Intelligenz in Forschung, Lehre und Hochschule, edited by Manfred Löwisch, Thomas Würtenberger, Max-Emanuel Geis and Dirk Heckmann, Duncker & Humblot, 2025, pp. 425-434.

Warum wir neu lernen müssen, mit Maschinen zu sprechen – eine Momentaufnahme der Generativen Künstlichen Intelligenz im Januar 2024.

Maria Kalweit und Gabriel Kalweit. Künstliche Intelligenz in Forschung, Lehre und Hochschule, edited by Manfred Löwisch, Thomas Würtenberger, Max-Emanuel Geis and Dirk Heckmann, Duncker & Humblot, 2025, pp. 111-127.

OpenReview.net

Salvage: Shapley-distribution Approximation Learning Via Attribution Guided Exploration for Explainable Image Classification.

Mehdi Naouar, Hanne Raum, Jens Rahnfeld, Yannick Vogt, Joschka Boedecker, Gabriel Kalweit and Maria Kalweit. International Conference on Learning Representations (ICLR) 2025

Deficiency of adenosine deaminase 2 skews adaptive immune repertoires towards specific sets of T and B cell receptors.

Schultheiß C*, Schmidt-Barbo P*, Paschold L, Esperanzate C, Behn A, Mikolajczyk R, Kasnter D, Aksentijevich I, Binder M.
J Allergy Clin Immunol. 2025

Oligoclonality of TRBC1 and TRBC2 in T cell lymphomas as mechanism of primary resistance to TRBC-directed CAR T cell therapies. Thiele*

B, Schmidt-Barbo* P, Schultheiss C, Willscher E, Weber T, Binder M.
Nature Communications 2025 Article number: 1104 2025

T cell receptor architecture and clonal tiding provide insight into the transformation trajectory of peripheral T cell lymphomas.

Willscher E*, Schultheiß C*, Paschold L, Schümann FL, Schmidt-Barbo P, Thiele B, Bauer M, Wickenhauser C, Weber T, Binder M.
Haematologica. 2024 Aug 29. doi: 10.3324/haematol.2024.285395.

A20 haploinsufficiency disturbs immune homeostasis and drives the transformation of lymphocytes with permissive antigen receptors.

Schultheiß C, Paschold L, Mohebiany AM, Escher M, Kattimani YM, Müller M, Schmidt-Barbo P, Mensa-Vilaró A, Aróstegui JI, Boursier G, de Moreuil C, Hautala T, Willscher E, Jonas H, Chinchuluun N, Grosser B, Märkl B, Klapper W, Oommen PT, Gössling K, Hoffmann K, Tiegs G, Czernilofsky F, Dietrich S, Freeman A, Schwartz DM, Waisman A, Aksentijevich I, Binder B.
Science Adv. 2024 Aug 23;10(34):eadl3975.

2024

OpenReview.net

Unsupervised Feature Extraction from a Foundation Model Zoo for Cell Similarity Search in Oncological Microscopy Across Devices.

Gabriel Kalweit, Anusha Klett, Mehdi Naouar, Jens Rahnfeld, Yannick Vogt, Diana Laura Infante Ramirez, Rebecca Berger, Jesus Duque Afonso, Tanja Nicole Hartmann, Marie Follo, Michael Luebbert, Roland Mertelsmann, Evelyn Ullrich, Joschka Boedecker and Maria Kalweit. ICML 2024. Workshop on Foundation Models in the Wild.

medRxiv

A Comparative Study of Explainability Methods for Whole Slide Classification of Lymph Node Metastases using Vision Transformers.

Jens Rahnfeld, Mehdi Naouar, Gabriel Kalweit, Joschka Boedecker, Estelle Dubruc, Maria Kalweit.

Plos
Computational Biology

Detection of disease-specific signatures in B cell repertoires of lymphomas using machine learning.

Paul Schmidt-Barbo, Gabriel Kalweit, Mehdi Naouar, Lisa Paschold, Edith Willscher, Christoph Schultheiss, Bruno Markl, Stefan Dirnhofer, Alexandar Tzankov, Mascha Binder und Maria Kalweit. PLOS Computational Biology, 2024.

Ordnung der Wissenschaft

Warum wir neu lernen müssen, mit Maschinen zu sprechen – eine Momentaufnahme der Generativen KI im Januar 2024.

Maria Kalweit und Gabriel Kalweit.

2023

CellMixer: Annotation-free Semantic Cell Segmentation of Heterogeneous Cell Populations.

Mehdi Naouar, Gabriel Kalweit, Anusha Klett, Yannick Vogt, Paula Silvestrini, Diana Infante, Roland Mertelsmann, Joschka Boedecker and Maria Kalweit. NeurIPS 2023 Workshop on Medical Imaging.

Stable Online and Offline Reinforcement Learning for Antibody CDRH3 Design.

Yannick Vogt, Mehdi Naouar, Maria Kalweit, Cornelius Miething, Justus Duyster, Roland Mertelsmann, Gabriel Kalweit and Joschka Boedecker. NeurIPS 2023 Workshop on Machine Learning in Structural Biology.

Wiley Analytical Science

Selection of phage-displayed antibodies with high affinity and specificity by electrophoresis in microfluidic devices.

Anahí Sanluis-Verdes; Ana Peñaherrera; José L. Torán; Anahí Sanluis-Verdes; María A. Noriega; Betiana Lerner; Maximiliano Pérez; José M. Casasnovas. Wiley Online Library – Electrophoresis.

ScienceDirect

Socrates in the Machine: The “House Ethicist” in AI for Healthcare.

Luis García Valiña, PhD; Paola Buedo, MD, MA; Timothy Daly, PhD. Journal of Radiology Nursing.

arXiv

Robust Tumor Detection from Coarse Annotations via Multi-Magnification Ensembles.

Mehdi Naouar, Gabriel Kalweit, Ignacio Mastroleo, Philipp Poxleitner, Marc Metzger, Joschka Boedecker and Maria Kalweit. Digital Oncology Conference (Oral).

2022

Ordnung der Wissenschaft

Künstliche Intelligenz in der Krebstherapie.

Gabriel Kalweit, Maria Kalweit, Ignacio Mastrolo, Joschka Bödecker, Roland Mertelsmann.
Ordnung in der Wissenschaft (Ausgabe 17-22).