Michael Krauthammer

ZORA Publication List

Publications

• Marquart, Kim Fabiano; Mathis, Nicolas; Mollaysa, Amina; Müller, Saphira; Kissling, Lucas; Rothgangl, Tanja; Schmidheini, Lukas; Kulcsár, Péter István; Allam, Ahmed; Kaufmann, Masako M; Matsushita, Mai; Haenggi, Tatjana; Cathomen, Toni; Kopf, Manfred; Krauthammer, Michael; Schwank, Gerald (2024). Effective genome editing with an enhanced ISDra2 TnpB system and deep learning-predicted ωRNAs. Nature Methods, 21(11):2084-2093.
• Esposito, Mauro; Yerly, Laura; Shukla, Prachi; Hermes, Victoria; Sella, Federica; Balazs, Zsolt; Lattmann, Evelyn; Tastanova, Aizhan; Turko, Patrick; Lang, Ramon; Kolm, Isabel; Staeger, Ramon; Kuonen, François; Krauthammer, Michael; Hafner, Juerg; Levesque, Mitchell P; Restivo, Gaetana (2024). COL10A1 expression distinguishes a subset of cancer-associated fibroblasts present in the stroma of high-risk basal cell carcinoma. British Journal of Dermatology, 191(5):775-790.
• Balázs, Zsolt; Balermpas, Panagiotis; Ivanković, Ivna; Willmann, Jonas; Gitchev, Todor; Bryant, Asher; Guckenberger, Matthias; Krauthammer, Michael; Andratschke, Nicolaus (2024). Longitudinal cell-free DNA characterization by low-coverage whole-genome sequencing in patients undergoing high-dose radiotherapy. Radiotherapy and Oncology, 197:110364.
• Mathis, Nicolas; Allam, Ahmed; Tálas, András; Kissling, Lucas; Benvenuto, Elena; Schmidheini, Lukas; Schep, Ruben; Damodharan, Tanav; Balazs, Zsolt; Janjuha, Sharan; Ioannidi, Eleonora I; Böck, Desirée; van Steensel, Bas; Krauthammer, Michael; Schwank, Gerald (2024). Machine learning prediction of prime editing efficiency across diverse chromatin contexts. Nature Biotechnology:Epub ahead of print.
• Rakebrandt, Nikolas; Yassini, Nima; Kolz, Anna; Schorer, Michelle; Lambert, Katharina; Goljat, Eva; Estrada Brull, Anna; Rauld, Celine; Balazs, Zsolt; Krauthammer, Michael; Carballido, José M; Peters, Anneli; Joller, Nicole (2024). Innate acting memory Th1 cells modulate heterologous diseases. Proceedings of the National Academy of Sciences of the United States of America, 121(24):e2312837121.
• Trottet, Cécile; Allam, Ahmed; Horvath, Aron N; Finckh, Axel; Hügle, Thomas; Adler, Sabine; Kyburz, Diego; Micheroli, Raphael; Krauthammer, Michael; Ospelt, Caroline (2024). Explainable deep learning for disease activity prediction in chronic inflammatory joint diseases. PLOS Digital Health, 3(6):e0000422.
• Komninou, Maria Angeliki; Egli, Simon; Rossi, Aurelio; Ernst, Jutta; Krauthammer, Michael; Schuepbach, Reto A; Delgado, Marcos; Bartussek, Jan (2024). Former smoking, but not active smoking, is associated with delirium in postoperative ICU patients: a matched case-control study. Frontiers in Psychiatry, 15:1347071.
• Balázs, Zsolt; Gitchev, Todor; Ivanković, Ivna; Krauthammer, Michael (2024). Fragmentstein—facilitating data reuse for cell-free DNA fragment analysis. Bioinformatics, 40(1):btae017.
• Shaitarova, Anastassia; Zaghir, Jamil; Lavelli, Alberto; Krauthammer, Michael; Rinaldi, Fabio (2023). Exploring the Latest Highlights in Medical Natural Language Processing across Multiple Languages: A Survey. Yearbook of medical informatics, 32(01):230-243.
• Mathis, Nicolas; Allam, Ahmed; Kissling, Lucas; Marquart, Kim Fabiano; Schmidheini, Lukas; Solari, Cristina; Balázs, Zsolt; Krauthammer, Michael; Schwank, Gerald (2023). Predicting prime editing efficiency and product purity by deep learning. Nature Biotechnology, 41(8):1151-1159.
• Garaiman, Alexandru; Nooralahzadeh, Farhad; Mihai, Carina; Gonzalez, Nicolas Perez; Gkikopoulos, Nikitas; Becker, Mike Oliver; Distler, Oliver; Krauthammer, Michael; Maurer, Britta (2023). Vision transformer assisting rheumatologists in screening for capillaroscopy changes in systemic sclerosis: an artificial intelligence model. Rheumatology, 62(7):2492-2500.
• Trottet, Cécile Claire; Allam, Ahmed; Horvath, Aron N; Micheroli, Raphael; Krauthammer, Michael; Ospelt, Caroline (2023). Explainable Deep Learning for Disease Activity Prediction in Chronic Inflammatory Joint Diseases. In: ICML 3rd Workshop on Interpretable Machine Learning in Healthcare (IMLH), Honolulu, Hawaii, 28 July 2023, 1-8.
• Eichhoff, Ossia M; Stoffel, Corinne I; Käsler, Jan; Briker, Luzia; Turko, Patrick; Karsai, Gergely; Zila, Nina; Paulitschke, Verena; Cheng, Phil F; Leitner, Alexander; Bileck, Andrea; Zamboni, Nicola; Irmisch, Anja; Balazs, Zsolt; Tastanova, Aizhan; Pascoal, Susana; Johansen, Pål; Wegmann, Rebekka; Mena, Julien; Othman, Alaa; Viswanathan, Vasanthi S; Wenzina, Judith; Aloia, Andrea; Saltari, Annalisa; Dzung, Andreas; Krauthammer, Michael; Schreiber, Stuart L; Hornemann, Thorsten; Distel, Martin; Snijder, Berend; Dummer, Reinhard; Levesque, Mitchell Paul (2023). ROS Induction Targets Persister Cancer Cells with Low Metabolic Activity in NRAS-Mutated Melanoma. Cancer Research, 83(7):1128-1146.
• Rohanian, Morteza; Nooralahzadeh, Farhad; Rohanian, Omid; Clifton, David; Krauthammer, Michael (2023). Disfluent Cues for Enhanced Speech Understanding in Large Language Models. In: Empirical Methods in Natural Language Processing (EMNLP), Singapore, 2023, 3676-3684.
• Biller-Andorno, Nikola; Christen, Markus; Krauthammer, Michael; Witt, Claudia (2023). Position paper: Artificial Intelligence in Medicine – Objectives and Recommendations for the Responsible Use of Digital Twins. Zürich: UZH – Digital Society Initiative (DSI).
• Restivo, Gaetana; Tastanova, Aizhan; Balázs, Zsolt; Panebianco, Federica; Diepenbruck, Maren; Ercan, Caner; Preca, Bodgan-T; Hafner, Jürg; Weber, Walter P; Kurzeder, Christian; Vetter, Marcus; Soysal, Simone Münst; Beisel, Christian; Bentires-Alj, Mohamed; Piscuoglio, Salvatore; Krauthammer, Michael; Levesque, Mitchell P (2022). Live slow-frozen human tumor tissues viable for 2D, 3D, ex vivo cultures and single-cell RNAseq. Communications Biology, 5:1144.
• Eichhoff, Ossia M; Stoffel, Corinne Isabelle; Käsler, Jan; Briker, Luzia; Turko, Patrick; Karsai, Gergely; Zila, Nina; Paulitschke, Verena; Cheng, Phil F; Leitner, Alexander; Bileck, Andrea; Zamboni, Nicola; Irmisch, Anja; Balázs, Zsolt; Tastanova, Aizhan; Pascoal, Susana; Johansen, Pål; Wegmann, Rebekka; Mena, Julien; Othman, Alaa; Viswanathan, Vasanthi S; Wenzina, Judith; Aloia, Andrea; Saltari, Annalisa; Dzung, Andreas; Krauthammer, Michael; Schreiber, Stuart L; Hornemann, Thorsten; Distel, Martin; Snijder, Berend; Dummer, R; Levesque, Mitchell (2022). ROS induction as a strategy to target persister cancer cells with low metabolic activity in NRAS mutated melanoma. bioRxiv 512839, Cold Spring Harbor Laboratory.
• Schwarz, Kyriakos; Trejo Banos, Daniel; Rathmes, Giulia; Krauthammer, Michael (2022). Drug prescription clusters in the UK Biobank: An assessment of drug-drug interactions and patient outcomes in a large patient cohort. ArXiv.org 2207.08665, Cornell University.
• Ivankovic, Ivana; Balázs, Zsolt; Gitchev, Todor; Trejo Banos, Daniel; Moldovan, Norbert; Panagiotis, Balermpas; Willmann, Jonas; Andratschke, N; Moulière, Florent; Krauthammer, Michael (2022). A versatile computational pipeline for the preprocessing of cell-free DNA fragmentation data. Cancer Research 82, University of Zurich.
• Ivankovic, Ivna; Balázs, Zsolt; Gitchev, Todor; Banos, Daniel Trejo; Moldovan, Norbert; Balermpas, Panagiotis; Willmann, Jonas; Andratschke, Nicolaus; Moulière, Florent; Krauthammer, Michael (2022). Abstract 1912: A versatile computational pipeline for the preprocessing of cell-free DNA fragmentation data. Cancer Research, 82(12_Supplem):1912.

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