Publications of O Kohlbacher

Kohlbacher, O.; Vitek, O.; Weintraub, S.: Challenges in Large-Scale Computational Mass Spectrometry and Multiomics. Journal of Proteome Research 15 (3), pp. 681 - 682 (2016)

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 (Gesellschaft für Informatik: GI-Edition / Proceedings, 83). German Conference on Bioinformatics (GCB 2006), Tübingen, Germany, September 19, 2006 - September 22, 2006. Gesellschaft für Informatik e.V., Bonn, Germany (2006)

Schultheiss, S.; Busch, W.; Lohmann, J.; Kohlbacher, O.; Rätsch, G.: KIRMES: Kernel-based Identification of Regulatory Modules in Euchromatic Sequences. In: German Conference on Bioinformatics: GCB 2008, pp. 158 - 167 (Eds. Beyer, A.; Schroeder, M.). German Conference on Bioinformatics 2008 (GCB 2008), Dresden, Germany, September 09, 2008 - September 12, 2008. Gesellschaft für Informatik, Bonn, Germany (2008)

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)