Publications of O Kohlbacher

Fillinger, S.; de la Garza, L.; Peltzer, A.; Kohlbacher, O.; Nahnsen, S.: Challenges of big data integration in the life sciences. Analytical and Bioanalytical Chemistry 411 (26), pp. 6791 - 6800 (2019)

Licha, D.; Vidali, S.; Aminzadeh-Gohari, S.; Alka, O.; Breitkreuz, L.; Kohlbacher, O.; Reischl, R.; Feichtinger, R.; Kofler, B.; Huber, C.: Untargeted Metabolomics Reveals Molecular Effects of Ketogenic Diet on Healthy and Tumor Xenograft Mouse Models. International Journal of Molecular Sciences 20 (16), 3873 (2019)

Ali, M.; Foldvari, Z.; Giannakopoulou, E.; Böschen, M.-L.; Strønen, E.; Yang, W.; Toebes, M.; Schubert, B.; Kohlbacher, O.; Schumacher, T. et al.; Olweus, J.: Induction of neoantigen-reactive T cells from healthy donors. Nature Protocols 14 (6), pp. 1926 - 1943 (2019)

Löffler, M.; Mohr, C.; Bichmann, L.; Freudenmann, L.; Walzer, M.; Schroeder, C.; Trautwein, N.; Hilke, F.; Zinser, R.; Mühlebruch, D. et al.; Kowalewski, J.; Schuster, H.; Sturm, M.; Matthes, J.; Riess, O.; Czemmel, S.; Nahnsen, S.; Königsrainer, I.; Thiel, K.; Nadalin, S.; Beckert, S.; Bösmüller, H.; Fend, F.; Velic, A.; Maček, B.; Haen, S.; Buonaguro, L.; Kohlbacher, O.; Stevanović , S.; Königsrainer, A.; HEPAVAC Consortium; Rammensee, H.-G.: Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma. Genome Medicine 11, 28 (2019)

Bilich, T.; Nelde, A.; Bichmann, L.; Roerden, M.; Salih, H.; Kowalewski, D.; Schuster, H.; Tsou, C.-C.; Marcu, A.; Neidert, M. et al.; Lübke, M.; Rieth, J.; Schemionek, M.; Brümmendorf, T.; Vucinic, V.; Niederwieser, D.; Bauer, J.; Märklin, M.; Peper, J.; Klein, R.; Kohlbacher, O.; Kanz, L.; Rammensee, H.-G.; Stevanović, S.; Walz, J.: The HLA ligandome landscape of chronic myeloid leukemia delineates novel T-cell epitopes for immunotherapy. Blood 133 (6), pp. 550 - 565 (2019)

Creydt, M.; Hudzik, D.; Rurik, M.; Kohlbacher, O.; Fischer, M.: Food Authentication: Small-Molecule Profiling as a Tool for the Geographic Discrimination of German White Asparagus. Journal of Agricultural and Food Chemistry 66 (50), pp. 13328 - 13339 (2018)

Domingo-Calap, P.; Schubert, B.; Joly, M.; Solis, M.; Untrau, M.; Carapito , R.; Georgel, P.; Caillard, S.; Fafi-Kremer, S.; Paul, N. et al.; Kohlbacher, O.; González-Candelas, F.; Bahram, S.: An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides. PLoS Pathogens 14 (10), e1007368 (2018)

Fröhlich, H.; Balling, R.; Beerenwinkel, N.; Kohlbacher, O.; Kumar, S.; Lengauer, T.; Maathuis, M.; Moreau, Y.; Murphy, S.; Przytycka, T. et al.; Rebhan, M.; Röst, H.; Schuppert, A.; Schwab, M.; Spang, R.; Stekhoven, D.; Sun, J.; Weber, A.; Ziemek, D.; Zupan, B.: From Hype to Reality: Data Science Enabling Personalized Medicine. BMC Medicine 16, 150 (2018)

Kahles, A.; Lehmann, K.-V.; Toussaint, N.; Hüser, M.; Sachsenberg, T.; Stegle, O.; Kohlbacher, O.; Sander, C.; Cancer Genome Atlas Research Network; Rätsch, G.: Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients. Cancer Cell 34 (2), pp. 211 - 224 (2018)

Löffler, M.; Kowalewski, D.; Backert, L.; Bernhardt, J.; Adam, P.; Schuster, H.; Dengler, F.; Backes, D.; Kopp, H.-G.; Beckert, S. et al.; Wagner, S.; Königsrainer, I.; Kohlbacher, O.; Kanz, L.; Königsrainer, A.; Rammensee, H.-G.; Stevanović, S.; Haen, S.: Mapping the HLA Ligandome of Colorectal Cancer Reveals an Imprint of Malignant Cell Transformation. Cancer research: an official organ of the American Association for Cancer Research 78 (16), pp. 4627 - 4641 (2018)

Walz, J.; Kowalewski, D.; Backert, L.; Nelde, A.; Kohlbacher, O.; Weide, B.; Kanz, L.; Salih, H.; Rammensee, H.-G.; Stevanović, S.: Favorable immune signature in CLL patients, defined by antigen-specific T-cell responses, might prevent second skin cancers. Leukemia & Lymphoma 59 (8), pp. 1949 - 1958 (2018)

Apweiler, R.; Beissbarth, T.; Berthold, M.; Bluethgen, N.; Burmeister, Y.; Dammann, O.; Deutsch, A.; Feuerhake, F.; Franke, A.; Hasenauer, J. et al.; Hoffmann, S.; Hoefer, T.; Jansen, P.; Kaderali, L.; Klingmueller, U.; Koch, I.; Kohlbacher, O.; Kuepfer, L.; Lammert, F.; Maier, D.; Pfeifer, N.; Radde, N.; Rehm, M.; Roeder, I.; Saez-Rodriguez, J.; Sax, U.; Schmeck, B.; Schuppert, A.; Seilheimer, B.; Theis, F.; Vera, J.; Wolkenhauer, O.: Whither systems medicine? Experimental & Molecular Medicine 50 (3), e453 (2018)

Schubert, B.; Schärfe, C.; Dönnes, P.; Hopf, T.; Marks, D.; Kohlbacher, O.: Population-specific design of de-immunized protein biotherapeutics. PLoS Computational Biology 14 (3), e1005983 (2018)

Nelde, A.; Kowalewski, D.; Backert, L.; Schuster, H.; Werner, J.-O.; Klein, R.; Kohlbacher, O.; Kanz, L.; Salih, H.; Rammensee, H.-G. et al.; Stevanović, S.; Walz, J.: HLA ligandome analysis of primary chronic lymphocytic leukemia (CLL) cells under lenalidomide treatment confirms the suitability of lenalidomide for combination with T-cell-based immunotherapy. Oncoimmunology 7 (4), e1316438 (2018)

Mohr, C.; Friedrich, A.; Wojnar, D.; Kenar, E.; Polatkan, A.; Codrea, M.; Czemmel, S.; Kohlbacher, O.; Nahnsen, S.: qPortal: A platform for data-driven biomedical research. PLoS One 13 (1), e0191603 (2018)

Schärfe, C.; Tremmel, R.; Schwab, M.; Kohlbacher, O.; Marks, D.: Genetic variation in human drug-related genes. Genome Medicine 9, 117 (2017)

Flett, F.; Sachsenberg, T.; Kohlbacher, O.; Mackay, C.; Interthal, H.: Differential Enzymatic O-16/O-18 Labeling for the Detection of Cross-Linked Nucleic Acid-Protein Heteroconjugates. Analytical Chemistry 89 (21), pp. 11208 - 11213 (2017)

Pfeuffer, J.; Sachsenberg, T.; Alka, O.; Walzer, M.; Fillbrunn, A.; Nilse, L.; Schilling, O.; Reinert, K.; Kohlbacher, O.: OpenMS: A platform for reproducible analysis of mass spectrometry data. Journal of Biotechnology 261, pp. 142 - 148 (2017)

Schuster, H.; Peper, J.; Boesmueller, H.-C.; Röhle, K.; Backert, L.; Bilich, T.; Ney, B.; Loeffler, M.; Kowalewski, D.; Trautwein, N. et al.; Rabsteyn, A.; Engler, T.; Braun, S.; Haen, S.; Walz, J.; Schmid-Horch, B.; Brucker, S.; Wallwiener, D.; Kohlbacher, O.; Fend, F.; Rammensee, H.-G.; Stevanovic, S.; Staebler, A.; Wagner, P.: The immunopeptidomic landscape of ovarian carcinomas. Proceedings of the National Academy of Sciences of the United States of America 114 (46), pp. E9942 - E9951 (2017)

Chevrette, M.; Aicheler, F.; Kohlbacher, O.; Currie, C.; Medema, M.: SANDPUMA: ensemble predictions of nonribosomal peptide chemistry reveal biosynthetic diversity across Actinobacteria. Bioinformatics 33 (20), pp. 3202 - 3210 (2017)