Dr. rer. nat. Stefan Höhme

Dr. rer. nat. Stefan Höhme


Image analysis and multiscale tissue modeling


+49 (0) 341 - 97 16660

Room: 447


  • Interdisciplinary Centre for Bioinformatics (IZBI), Group Image analysis and multiscale tissue modeling (have a look at: www.hoehme.com)
  • Faculty for Bioinformatics, Leipzig University
  • Max Planck Institute for Human Cognitive and Brain Science (MPI CBS)
  • Max Planck Institute for Mathematics in the Sciences (MPI MIS)
  • Institute for Medical Informatics, Statistics and Epidemiology (IMISE)
  • Interdisciplinary Centre for Bioinformatics (IZBI)


  • Image / Volume processing and analysis
  • Visualisation
  • Multiscale liver models


Awards & Grants
  • Reinhard Heinrich Doctoral Thesis Award 2011 (1st prize) by the European Society for Mathematical and Theoretical Biology (ESMTB) for best annual thesis from any area of Mathematical and Theoretical Biology
  • Grant: DFG Emmy-Noether-Programme (2015-2020)
  • Grant: BMBF LiSyM (Liver Systems Medicine) (2015-2021)
  • Grant: BMBF LiSyM-Krebs (2021-2024)



2023 (3)

  • R. J. P. Custodio, Z. Hobloss, M. Myllys, R. Hassan, D. González, J. Reinders, J. Bornhorst, A. K. Weishaupt, A. L. Seddek, T. Abbas, A. Friebel, S. Hoehme, S. Getzmann, J. G. Hengstler, C. van Thriel, A. Ghallab. Cognitive Functions, Neurotransmitter Alterations, and Hippocampal Microstructural Changes in Mice Caused by Feeding on Western Diet. Cells. 2023. 12:
  • A. Ghallab, D. González, E. Strängberg, U. Hofmann, M. Myllys, R. Hassan, Z. Hobloss, L. Brackhagen, B. Begher-Tibbe, J. C. Duda, C. Drenda, F. Kappenberg, J. Reinders, A. Friebel, M. Vucur, M. Turajski, A. L. Seddek, T. Abbas, N. Abdelmageed, S. A. F. Morad, W. Morad, A. Hamdy, W. Albrecht, N. Kittana, M. Assali, N. Vartak, C. van Thriel, A. Sous, P. Nell, M. Villar-Fernandez, C. Cadenas, E. Genc, R. Marchan, T. Luedde, P. Åkerblad, J. Mattsson, H. U. Marschall, S. Hoehme, G. Stirnimann, M. Schwab, P. Boor, K. Amann, J. Schmitz, J. H. Bräsen, J. Rahnenführer, K. Edlund, S. J. Karpen, B. Simbrunner, T. Reiberger, M. Mandorfer, M. Trauner, P. A. Dawson, E. Lindström, J. G. Hengstler. Inhibition of the renal apical sodium dependent bile acid transporter prevents cholemic nephropathy in mice with obstructive cholestasis. J Hepatol. 2023. 80: 268-281.
  • Stefan Hoehme, Seddik Hammad, Jan Boettger, Brigitte Begher-Tibbe, Petru Bucur, Eric Vibert, Rolf Gebhardt, Jan G. Hengstler, Dirk Drasdo. Digital twin demonstrates significance of biomechanical growth control in liver regeneration after partial hepatectomy. iScience. 2023. 26: 105714.

2022 (6)

  • A. Friebel, T. Johann, D. Drasdo, S. Hoehme. Guided interactive image segmentation using machine learning and color-based image set clustering. Bioinformatics. 2022. 38: 4622-4628.
  • A. Ghallab, R. Hassan, U. Hofmann, A. Friebel, Z. Hobloss, L. Brackhagen, B. Begher-Tibbe, M. Myllys, J. Reinders, N. Overbeck, S. Sezgin, S. Zühlke, A. L. Seddek, W. Murad, T. Brecklinghaus, F. Kappenberg, J. Rahnenführer, D. González, C. Goldring, I. M. Copple, R. Marchan, T. Longerich, M. Vucur, T. Luedde, S. Urban, A. Canbay, T. Schreiter, M. Trauner, J. Y. Akakpo, M. Olyaee, S. C. Curry, J. P. Sowa, H. Jaeschke, S. Hoehme, J. G. Hengstler. Interruption of bile acid uptake by hepatocytes after acetaminophen overdose ameliorates hepatotoxicity. J Hepatol. 2022. 77: 71-83.
  • R. Hassan, A. Friebel, L. Brackhagen, Z. Hobloss, M. Myllys, D. González, W. Albrecht, E. S. I. Mohammed, A. L. Seddek, R. Marchan, C. Cadenas, B. Cramer, H. U. Humpf, L. Hartl, B. Simbrunner, T. Reiberger, M. Trauner, S. Hoehme, G. H. Degen, J. G. Hengstler, A. Ghallab. Hypoalbuminemia affects the spatio-temporal tissue distribution of ochratoxin A in liver and kidneys: consequences for organ toxicity. Arch Toxicol. 2022. 96: 2967-2981.
  • R. Hassan, D. González, Z. Hobloss, L. Brackhagen, M. Myllys, A. Friebel, A. L. Seddek, R. Marchan, B. Cramer, H. U. Humpf, S. Hoehme, G. H. Degen, J. G. Hengstler, A. Ghallab. Inhibition of cytochrome P450 enhances the nephro- and hepatotoxicity of ochratoxin A. Arch Toxicol. 2022. 96: 3349-3361.
  • R. Hassan, M. Myllys, L. Brackhagen, Z. Hobloss, D. González, A. L. Seddek, A. Friebel, S. Hoehme, R. Marchan, M. Trauner, J. G. Hengstler, A. Ghallab. Colchicine overdose impairs the capacity of Kupffer cells to clear foreign particles and endotoxins. Arch Toxicol. 2022. 96: 3067-3076.
  • Christian H. Holland, Ricardo O. Ramirez Flores, Maiju Myllys, Reham Hassan, Karolina Edlund, Ute Hofmann, Rosemarie Marchan, Cristina Cadenas, Jörg Reinders, Stefan Hoehme, Abdel-latif Seddek, Steven Dooley, Verena Keitel, Patricio Godoy, Brigitte Begher-Tibbe, Christian Trautwein, Christian Rupp, Sebastian Mueller, Thomas Longerich, Jan G. Hengstler, Julio Saez-Rodriguez, Ahmed Ghallab. Transcriptomic Cross-Species Analysis of Chronic Liver Disease Reveals Consistent Regulation Between Humans and Mice. Hepatology Communications. 2022. 6: 161-177.

2021 (3)

  • A. Ghallab, R. Hassan, M. Myllys, W. Albrecht, A. Friebel, S. Hoehme, U. Hofmann, A. L. Seddek, A. Braeuning, L. Kuepfer, B. Cramer, H. U. Humpf, P. Boor, G. H. Degen, J. G. Hengstler. Subcellular spatio-temporal intravital kinetics of aflatoxin B(1) and ochratoxin A in liver and kidney. Arch Toxicol. 2021. 95: 2163-2177.
  • Ahmed Ghallab, Maiju Myllys, Adrian Friebel, Julia Duda, Karolina Edlund, Emina Halilbasic, Mihael Vucur, Zaynab Hobloss, Lisa Brackhagen, Brigitte Begher-Tibbe, Reham Hassan, Michael Burke, Erhan Genc, Lynn Johann Frohwein, Ute Hofmann, Christian H. Holland, Daniela González, Magdalena Keller, Abdel-latif Seddek, Tahany Abbas, Elsayed S. I. Mohammed, Andreas Teufel, Timo Itzel, Sarah Metzler, Rosemarie Marchan, Cristina Cadenas, Carsten Watzl, Michael A. Nitsche, Franziska Kappenberg, Tom Luedde, Thomas Longerich, Jörg Rahnenführer, Stefan Hoehme, Michael Trauner, Jan G. Hengstler. Spatio-Temporal Multiscale Analysis of Western Diet-Fed Mice Reveals a Translationally Relevant Sequence of Events during NAFLD Progression. Cells. 2021. 10: 2516.
  • N. Vartak, G. Guenther, F. Joly, A. Damle-Vartak, G. Wibbelt, J. Fickel, S. Jörs, B. Begher-Tibbe, A. Friebel, K. Wansing, A. Ghallab, M. Rosselin, N. Boissier, I. Vignon-Clementel, C. Hedberg, F. Geisler, H. Hofer, P. Jansen, S. Hoehme, D. Drasdo, J. G. Hengstler. Intravital Dynamic and Correlative Imaging of Mouse Livers Reveals Diffusion-Dominated Canalicular and Flow-Augmented Ductular Bile Flux. Hepatology. 2021. 73: 1531-1550.

2018 (1)

  • G. Peeters, C. Debbaut, A. Friebel, P. Cornillie, W. H. De Vos, K. Favere, I. Vander Elst, T. Vandecasteele, T. Johann, L. Van Hoorebeke, D. Monbaliu, D. Drasdo, S. Hoehme, W. Laleman, P. Segers. Quantitative analysis of hepatic macro- and microvascular alterations during cirrhogenesis in the rat. J Anat. 2018. 232: 485-496.

2017 (1)

  • S. Hoehme, A. Friebel, S. Hammad, D. Drasdo, J. G. Hengstler. Creation of Three-Dimensional Liver Tissue Models from Experimental Images for Systems Medicine. Methods Mol Biol. 2017. 1506: 319-362.

2016 (1)

  • A. Ghallab, G. Celliere, S. G. Henkel, D. Driesch, S. Hoehme, U. Hofmann, S. Zellmer, P. Godoy, A. Sachinidis, M. Blaszkewicz, R. Reif, R. Marchan, L. Kuepfer, D. Haussinger, D. Drasdo, R. Gebhardt, J. G. Hengstler. Model-guided identification of a therapeutic strategy to reduce hyperammonemia in liver diseases. J Hepatol. 2016. 64: 860-71.