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  • Philipp Spohr, Sebastian Scharf, Anna Rommerskirchen, Birgit Henrich, Paul Jäger, Gunnar W. Klau, Rainer Haas, Alexander Dilthey, Klaus Pfeffer. "Insights into gut microbiomes in stem cell transplantation by comprehensive shotgun long-read sequencing" Scientific Reports 14:4068, https://doi.org/10.1038/s41598-024-53506-1  

  • Rebecca Serra Mari, Sven Schrinner, Richard Finkers, Freya Maria Rosemarie Ziegler, Paul Arens, Maximilian H.-W. Schmidt, Björn Usadel, Gunnar W. Klau, and Tobias Marschall. “Haplotype-Resolved Assembly of a Tetraploid Potato Genome Using Long Reads and Low-Depth Offspring Data.” Genome Biology 25, no. 1 (January 19, 2024): 26. https://doi.org/10.1186/s13059-023-03160-z 

  • Nguyen Khoa TranLaura C. KühleGunnar W. Klau. "A critical review of multi-output support vector regression" Pattern Recognition Letters 178, pp. 68-75 (2024). DOI: 10.1016/j.patrec.2023.12.007


  • Sara C. Schulte, Alexander T. Dilthey, Gunnar W. Klau. “HOGVAX: Exploiting epitope overlaps to maximize population coverage in vaccine design with application to SARS-CoV-2.”  Cell Systems 14 (2023). https://doi.org/10.1016/j.cels.2023.11.001

  • Eline S. van Mantgem, Johanna Hillebrand, Lukas Rose, and Gunnar W. Klau. “Coco: Conservation Design for Optimal Ecological Connectivity.” Frontiers in Ecology and Evolution 11 (2023). https://www.frontiersin.org/articles/10.3389/fevo.2023.1149571.

  • Lukas Becker, Philipp Spohr, Gunnar W. Klau, Ilka M. Axmann, Sebastian Fraune, and Nicolas M. Schmelling. “CATHI: An Interactive Platform for Comparative Genomics and Homolog Identification.” bioRxiv, September 6, 2023. https://doi.org/10.1101/2023.09.04.556229.

  • Nick D. Bergkamp, Jeffrey R. van Senten, Hendrik J. Brink, Maarten P. Bebelman, Jelle van den Bor, Tuğçe S. Çobanoğlu, Kasper Dinkla, Johannes Köster, Gunnar W. Klau, Marco Siderius, Martine Smit. “A Virally Encoded GPCR Drives Glioblastoma through Feed-Forward Activation of the SK1-S1P1 Signaling Axis.” Science Signaling 16, no. 798 (August 15, 2023): eade6737. doi.org/10.1126/scisignal.ade6737.

  • Martin Stroet, Bertrand Caron, Martin S. Engler, Jimi van der Woning, Aude Kauffmann, Marc van Dijk, Mohammed El-Kebir, Koen Visscher, Josef Holownia, Callum Macfarlane, Brian Bennion, Sveltlana Geipi-Dominguez, Felice Lightstone, Tijs van der Storm, Daan Geerke, Alan Mark and Gunnar W. Klau.  “OFraMP: A Fragment-Based Tool to Facilitate the Parametrization of Large Molecules.” Journal of Computer-Aided Molecular Design, June 13, 2023. https://doi.org/10.1007/s10822-023-00511-7.

  • F. Kretschmer, J. Seipp, M. Ludwig, G. W. Klau, S. Boecker. Small molecule machine learning: All models are wrong, some may not even be useful. bioRxiv 2023.03.27.534311; doi: https://doi.org/10.1101/2023.03.27.534311, 2023. 

  • Spohr, P., Scharf, S., Rommerskirchen, A., Henrich, B., Jäger, P., Klau, G. W., Haas, R., Dilthey, A., Pfeffer, K. MetaGut: Insights into gut microbiomes in stem cell transplantation by comprehensive shotgun long-read sequencing. bioRxiv 2023.03.10.531901; doi: https://doi.org/10.1101/2023.03.10.531901, 2023
  • S. Schulte, A. Dilthey, and G. W. Klau. HOGVAX: Exploiting Peptide Overlaps to Maximize Population Coverage in Vaccine Design with Application to SARS-CoV-2. bioRxiv, 2023.01. 09.523288; doi: https://doi.org/10.1101/2023.01.09.523288. 2023



  • Eline van Mantgem and Gunnar W. Klau. Boolean network inference at different levels of logical complexity. To appear in Proc. Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2021).
  • Sven Schrinner, Manish Goel, Michael Wulfert, Philipp Spohr, Korbinian Schneeberger and Gunnar W. Klau. Using the longest run subsequence problem within homology-based scaffolding. Algorithms for Molecular Biology 16, 11 (2021), https://doi.org/10.1186/s13015-021-00191-8.
  • Julia Hesse, Christoph Owenier, Tobias Lautwein, Ria Zalfen, Jonas F. Weber, Zhaoping Ding, Christina Alter, Alexander Lang, Maria Grandoch, Norbert Gerdes,  Jens W. Fischer, Gunnar W. Klau, Christoph Dieterich, Karl Köhrer, Jürgen Schrader. Single-cell transcriptomics defines heterogeneity of epicardial cells and fibroblasts within the infarcted heart.  eLife 2021;10:e65921 DOI: 10.7554/eLife.65921
  • Martin Papenberg and Gunnar W. Klau. Using anticlustering to partition data sets into equivalent parts. Psychological Methods, 26(2), 161–174. https://doi.org/10.1037/met0000301, 2021




  • Martin S. Engler, Bertrand Caron, Lourens Veen, Daan Geerke, Alan Mark, Gunnar W. Klau. Multiple-choice knapsack for assigning partial atomic charges in drug-like molecules. In Proc. WABI 2018, pp. 16:1-16:13, vol. 113 of Leibniz International Proceedings in Informatics (LIPIcs), doi 10.4230/LIPIcs.WABI.2018.16, 2018
  • Philipp Spohr, Kasper Dinkla, Gunnar W. Klau, Mohammed El-Kebir. eXamine: Visualizing annotated networks in Cytoscape. Software tool article in F1000Research 2018, 7:519 (doi: 10.12688/f1000research.14612.1) 
  • Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Ben Raphael. Phylogenetic Copy-Number Factorization of Multiple Tumor Samples. Journal of Computational Biology, https://doi.org/10.1089/cmb.2017.0253, 2018


  • Filipe Branco dos Santos, Brett G. Olivier, Joost Boele, Vincent Smessaert, Philippe De Rop, Petra Krumpochova, Gunnar W. Klau, Martin Giera, Philippe Dehottay, Bas Teusink,  Philippe Goffin. Probing the genome-scale metabolic landscape of Bordetella pertussis, the causative agent of whooping cough. Appl. Environ. Microbiol. doi:10.1128/AEM.01528-17, accepted, 2017
  • Martin S. Engler, Mohammed El-Kebir, Jelmer Mulder, Alan E. Mark, Daan P. Geerke, Gunnar W. Klau. Enumerating common molecular substructures. In Proc. German Bioinformatics Conference (GCB 2017). PeerJ Preprints 5:e3250v1
  • Gunnar W. Klau, Tobias Marschall. A Guided Tour to Computational Haplotyping. In Proc. of CiE 2017 (Computability in Europe). LNCS 10307, pp. 50-63, Springer, 2017.
  • Simone Zaccaria, Mohammed El-Kebir, Gunnar W. Klau, Ben J. Raphael. The Copy-Number Tree Mixture Deconvolution Problem and Applications to Multi-sample Bulk Sequencing Tumor Data. In: Sahinalp S. (eds) Research in Computational Molecular Biology. RECOMB 2017. LNCS 10229. Springer, 2017
  • Martin S. Engler, Kerstin Scheubert, Ulrich S. Schubert and Sebastian Böcker: Exploring the Limits of the Geometric Copolymerization Model. Polymers, 9:101, 2017. www.mdpi.com/2073-4360/9/3/101