Selected Publications

  • An agent-based model of Trypanosoma brucei social motility to explore determinants of colony pattern formation. Kuhn, Andreas; Krüger, Timothy; Engstler, Markus; Fischer, Sabine C. In PLOS Computational Biology, 22(8), ble. 1–33. Public Library of Science, 2026.
  • Visualizing the transcription and replication of influenza A viral RNAs in cells by multiple direct RNA padlock probing and in situ sequencing (mudRapp-seq). Ahmad, Shazeb; Li, Jianhui; Schaust, Joél; Gribling-Burrer, Anne-Sophie; Geiger, Nina; Fischer, Sabine C; Ambi, Uddhav B; Backes, Simone; Ankenbrand, Markus J; Smyth, Redmond P. In Nucleic Acids Research, 53(11). Oxford University Press (OUP), 2025.
  • Inference of alveolar capillary network connectivity from blood flow dynamics. Schmid, Kerstin; Olivares, Andy L.; Camara, Oscar; Kuebler, Wolfgang M.; Ochs, Matthias; Hocke, Andreas C.; Fischer, Sabine C. In American Journal of Physiology-Lung Cellular and Molecular Physiology. American Physiological Society, 2024.
  • Recognition and reconstruction of cell differentiation patterns with deep learning. Dirk, Robin; Fischer, Jonas L.; Schardt, Simon; Ankenbrand, Markus J.; Fischer, Sabine C. In PLOS Computational Biology, 19(10), ble. 1–29. Public Library of Science, 2023.
  • Novel integrative elements and genomic plasticity in ocean ecosystems. Hackl, Thomas; Laurenceau, Raphaël; Ankenbrand, Markus J.; Bliem, Christina; Cariani, Zev; Thomas, Elaina; Dooley, Keven D.; Arellano, Aldo A.; Hogle, Shane L.; Berube, Paul; Leventhal, Gabriel E.; Luo, Elaine; Eppley, John M.; Zayed, Ahmed A.; Beaulaurier, John; Stepanauskas, Ramunas; Sullivan, Matthew B.; DeLong, Edward F.; Biller, Steven J.; Chisholm, Sallie W. In Cell, 186(1), ble. 47–62.e16. Elsevier, 2023.
  • Temporal environmental variation imposes differential selection on both genomic and ecological traits. Leidinger, Ludwig; Vedder, Daniel; Cabral, Juliano S. In Oikos, 130, ble. 1100–1115. 2021.

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