Publications of O Kohlbacher

Zaman, U.; Richter, F.; Hofele, R.; Kramer, K.; Sachsenberg, T.; Kohlbacher, O.; Lenz, C.; Urlaub, H.: Dithiothreitol (DTT) acts as a specific, UV-inducible cross-linker in elucidation of protein-RNA interactions. Molecular and Cellular Proteomics 14 (12), pp. 3196 - 3210 (2015)

Backert, L.; Kohlbacher, O.: Immunoinformatics and epitope prediction in the age of genomic medicine. Genome Medicine 7, 119 (2015)

Sharma, K.; Hrle, A.; Kramer, K.; Sachsenberg, T.; Staals, R.; Randau, L.; Marchfelder, A.; van der Oost, J.; Kohlbacher, O.; Conti, E. et al.; Urlaub, H.: Analysis of protein–RNA interactions in CRISPR proteins and effector complexes by UV-induced cross-linking and mass spectrometry. Methods 89, pp. 138 - 148 (2015)

Venturelli, S.; Belz, R.; Kämper, A.; Berger, A.; von Horn, K.; Wegner, A.; Böcker, A.; Zabulon, G.; Langenecker, T.; Kohlbacher, O. et al.; Barneche, F.; Weigel, D.; Lauer, U.; Bitzer, M.; Becker, C.: Plants Release Precursors of Histone Deacetylase Inhibitors to Suppress Growth of Competitors. Plant Cell 27 (11), pp. 3175 - 3189 (2015)

Thost, A.-K.; Dönnes, P.; Kohlbacher, O.; Proikas-Cezanne, T.: Fluorescence-based imaging of autophagy progression by human WIPI protein detection. Methods 75, pp. 69 - 78 (2015)

Proikas-Cezanne, T.; Takacs, Z.; Dönnes, P.; Kohlbacher, O.: WIPI proteins: essential PtdIns3P effectors at the nascent autophagosome. Journal of Cell Science 128 (2), pp. 207 - 217 (2015)

Kramer, K.; Sachsenberg, T.; Beckmann, B.; Qamar, S.; Boon, K.; Hentze, M.; Kohlbacher, O.; Urlaub, H.: Photo-cross-linking and high-resolution mass spectrometry for assignment of RNA-binding sites in RNA-binding proteins. Nature Methods 11 (10), pp. 1064 - 1070 (2014)

Malisi, C.; Schumann, M.; Toussaint, N.; Kageyama, J.; Kohlbacher, O.; Höcker, B.: Binding pocket optimization by computational protein design. PLoS One 7 (12), e52505 (2012)

Malisi, C.; Kohlbacher, O.; Höcker, B.: Automated scaffold selection for enzyme design. Proteins: Structure, Function, and Genetics 77 (1), pp. 74 - 83 (2009)

Schneeberger, K.; Hagmann, J.; Ossowski, S.; Warthmann, N.; Gesing, S.; Kohlbacher, O.; Weigel, D.: Simultaneous alignment of short reads against multiple genomes. Genome Biology 10 (9), R98 (2009)

Schultheiss, S.; Busch, W.; Lohmann, J.; Kohlbacher, O.; Rätsch, G.: KIRMES: kernel-based identification of regulatory modules in euchromatic sequences. Bioinformatics 25 (16), pp. 2126 - 2133 (2009)

Rurik, M.; Alka, O.; Aicheler, F.; Kohlbacher, O.: Metabolomics Data Processing Using OpenMS. In: Methods in Molecular Biology, Vol. 2104. Springer, US (2020)

Nieselt, K.; Pfeifer, N.; Lupas, A.; Kohlbacher, O. (Eds.): Poster abstracts of the 25th German Conference on Bioinformatics. German Conference on Bioinformatics (GCB 2017), Tübingen, Germany, September 18, 2017 - September 21, 2017. (2017), 63 pp.

Huson, D.; Kohlbacher, O.; Lupas, A.; Nieselt, K.; Zell, A. (Eds.): German Conference on Bioinformatics GCB 2006. German Conference on Bioinformatics (GCB 2006), Tübingen, Germany, September 19, 2006 - September 22, 2006. Gesellschaft für Informatik e.V., Bonn, Germany (2006)

Kohlbacher, O.; Burchardt, A.; Moll, A.; Hildebrandt, A.; Bayer, P.; Lenhof, H.-P.: A NMR-spectra-based scoring function for protein docking. In: RECOMB '01: Proceedings of the Fifth Annual International Conference on Computational Biology, pp. 184 - 192 (Ed. Lengauer, T.). Fifth Annual International Conference on Computational Molecular Biology (RECOMB 2001), Montreal, Canada, April 22, 2001 - April 25, 2001. ACM Press, New York, NY, USA (2001)

Althaus, E.; Kohlbacher, O.; Lenhof, H.-P.; Müller, P.: A Combinatorial Approach to Protein Docking with Flexible Side-Chains. In: Proceedings of the 4th Annual International Conference on Computational Molecular Biology (RECOMB-00), pp. 15 - 24 (Eds. Shamir, R.; Miyano, S.; Istrail, S.; Pevzner, P.; Waterman, M.). Fourth Annual International Conference on Computational Molecular Biology (RECOMB 2000) , Tokyo, Japan, April 08, 2000 - April 11, 2000. ACM Press, New York, USA (2000)

Jeong, K.; Babović, M.; Kim, J.; Shliaha, P.; Gibb, S.; Jensen, O.; Kohlbacher, O.: FLASHDeconv: ultrafast high-quality deconvolution for top-down MS1/MS2 spectra. In 68th ASMS Conference on Mass Spectrometry and Allied Topics. 68th ASMS Conference on Mass Spectrometry and Allied Topics, June 01, 2020 - June 12, 2020. (2020)

Alka, O.; Witting, M.; Kleigrewe, K.; Kohlbacher, O.; Röst, L.: OpenSWATH Enables Automated Data Processing for Data-Independent Acquisition in Metabolomics. In 67th ASMS Conference on Mass Spectrometry and Allied Topics. 67th ASMS Conference on Mass Spectrometry and Allied Topics, Atlanta, GA, USA, June 02, 2019 - June 06, 2019. (2019)

Sachsenberg, T.; Stützer, A.; Chernev, A.; Netz, E.; Dijkstra, T.; Urlaub, H.; Kohlbacher, O.: A Novel Computational Approach for Simultaneous Identification of Protein-RNA and Protein-DNA Interactions from XL-MS Data. In 67th ASMS Conference on Mass Spectrometry and Allied Topics. 67th ASMS Conference on Mass Spectrometry and Allied Topics, Atlanta, GA, USA, June 02, 2019 - June 06, 2019. (2019)

Lehmann, K.; Kahles, A.; Toussaint, N.; Hüser, M.; Stark, S.; Sachsenberg, T.; Stegle, O.; Kohlbacher, O.; Sander, C.; Rätsch, G.: Comprehensive analysis of alternative splicing across tumors from 8,705 patients. In 68th Annual Meeting of the American Society of Human Genetics (ASHG 2018), 371, p. 186. 68th Annual Meeting of the American Society of Human Genetics (ASHG 2018), San Diego, CA, USA, October 16, 2018 - October 20, 2018. (2018)