Scientific Publications

Schweikert, G.; Zien, A.; Zeller, G.; Behr, J.; Dieterich, C.; Ong, C.; Philips, P.; De Bona, F.; Hartmann, L.; Bohlen, A. et al.; Krüger, N.; Sonnenburg, S.; Rätsch, G.: mGene: Accurate SVM-based gene finding with an application to nematode genomes. Genome Research 19 (11), pp. 2133 - 2143 (2009)

Kitano, J.; Ross, J.; Mori, S.; Kume, M.; Jones, F.; Chan, Y.; Absher, D.; Grimwood, J.; Schmutz, J.; Myers, R. et al.; Kingsley, D.; Peichel, C.: A role for a neo-sex chromosome in stickleback speciation. Nature 461 (7267), pp. 1079 - 1083 (2009)

Schmeing, T.; Voorhees, R.; Kelley, A.; Gao, Y.-G.; Murphy, F.; Weir, J.; Ramakrishnan, V.: The crystal structure of the ribosome bound to EF-Tu and aminoacyl-tRNA. Science 326 (5953), pp. 688 - 694 (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)

McNally, K.; Childs, K.; Bohnert, R.; Davidson, R.; Zhao, K.; Ulat, V.; Zeller, G.; Clark, R.; Hoen, T.; Bureau, D. et al.; Stokowski, R.; Ballinger, D.; Frazer, K.; Cox, D.; Padhukasahasram, B.; Bustamante, C.; Weigel, D.; Mackill, D.; Bruskiewich, R.; Rätsch, G.; Buell, C.; Leung, H.; Leach, J.: Genomewide SNP variation reveals relationships among landraces and modern varieties of rice. Proceedings of the National Academy of Sciences of the United States of America 106 (30), pp. 12273 - 12278 (2009)

Schweikert, G.; Behr, J.; Zien, A.; Zeller, G.; Ong, C.; Sonnenburg, S.; Rätsch, G.: mGene.web: a web service for accurate computational gene finding. Nucleic Acids Research (London) 37 (Supplement 2), pp. W312 - W316 (2009)

Zeller, G.; Henz, S.; Widmer, C.; Sachsenberg, T.; Rätsch, G.; Weigel, D.; Laubinger, S.: Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays. The Plant Journal 58 (6), pp. 1068 - 1082 (2009)

Antonin, W.: Nuclear envelope: membrane bending for pore formation? Current Biology 19 (10), pp. R410 - R412 (2009)

Georgii, E.; Dietmann, S.; Uno, T.; Pagel , P.; Tsuda, K.: Enumeration of condition-dependent dense modules in protein interaction networks. Bioinformatics 25 (7), pp. 933 - 940 (2009)

Plantegenet, S.; Weber, S.; Goldstein, D.; Zeller, G.; Nussbaumer, C.; Thomas, J.; Weigel, D.; Harshman, K.; Hardtke, C.: Comprehensive analysis of Arabidopsis expression level polymorphisms with simple inheritance. Molecular Systems Biology 5, 242 (2009)

Schuette, J.-C.; Murphy, V.; Kelley, A.; Weir, J.; Giesebrecht, J.; Connell, S.; Loerke, J.; Mielke, T.; Zhang, W.; Penczek, P. et al.; Ramakrishnan, V.; Spahn, C.: GTPase activation of elongation factor EF-Tu by the ribosome during decoding. The EMBO Journal 28 (6), pp. 755 - 765 (2009)

Graf, A.; Bousquet, O.; Rätsch, G.; Rätsch, G.; Schölkopf, B.: Prototype Classification: Insights from Machine Learning. Neural computation 21 (1), pp. 272 - 300 (2009)

Naouar, N.; Vandepoele, K.; Lammens, T.; Casneuf, T.; Zeller, G.; van Hummelen, P.; Weigel, D.; Rätsch, G.; Inzé, D.; Kuiper, M. et al.; De Veylder, L.; Vuylsteke, M.: Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target. The Plant Journal 57 (1), pp. 184 - 194 (2009)

Naouar, N.; Vandepoele, K.; Lammens, T.; Casneuf, T.; Zeller, G.; van Hummelen, P.; Weigel, D.; Rätsch, G.; Inzé, D.; Kuiper, N. et al.; De Veylder, L.; Vuylsteke, M.: Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes. The Plant Journal 57 (1), pp. 184 - 194 (2009)

Rätsch, G.; Bohnert, R.: Moderne Methoden zur Rekonstruktion von Transkriptomen: Modern methods for transcriptome reconstruction. Jahrbuch der Max-Planck-Gesellschaft 2008/2009 (2009)

Tsuda, K.; Georgii, E.: Dense module enumeration in biological networks. International Workshop on Statistical-Mechanical Informatics (IW-SMI 2009), Kyoto, Japan, September 13, 2009 - September 16, 2009. Journal of Physics: Conference Series 197 (1), 012012, (2009)

Schweikert, G.; Widmer, C.; Schölkopf, B.; Rätsch, G.: An Empirical Analysis of Domain Adaptation Algorithms for Genomic Sequence Analysis. In: Advances in neural information processing systems 21, pp. 1433 - 1440 (Eds. Koller, D.; Schuurmans, D.; Bengio, Y.; Bottou, L.). Twenty-Second Annual Conference on Neural Information Processing Systems (NIPS 2008), Vancouver, BC, Canada, December 08, 2008 - December 10, 2008. Curran, Red Hook, NY, USA (2009)

Zien, A.; Krämer, N.; Sonnenburg, S.; Rätsch, G.: The Feature Importance Ranking Measure. In: Machine Learning and Knowledge Discovery in Databases: European Conference, ECML PKDD 2009, Bled, Slovenia, September 7-11, 2009, Proceedings, Part II, pp. 694 - 709 (Eds. Buntine, W.; Grobelnik, M.; Mladenić, D.; Shawe-Taylor, J.). 16th European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML PKDD 2009), Bled, Slovenia, September 07, 2009 - September 11, 2009. Springer, Berlin, Germany (2009)

Koch, A.; Rode, H.; Rauh, D.; Hauf, S.: An Enhanced Chemical Genetic Strategy to Allow Covalent Inhibition of the Fission Yeast Aurora Kinase. In 48th Annual Meeting of the American Society for Cell Biology (ASCB 2009), 608/B555, p. 294. 48th Annual Meeting of the American Society for Cell Biology (ASCB 2009), San Diego, CA, USA, December 05, 2009 - December 09, 2009. (2009)

Schultheiss, S.; Busch, W.; Lohmann, J.; Kohlbacher, O.; Rätsch, G.: KIRMES: kernel-based identification of regulatory modules in euchromatic sequences. In BMC Bioinformatics, 10 (Supplement 13), O1. 5th International Society for Computational Biology Student Council (ISCB 2009) at the Symposium at the 17th Annual International Conference on Intelligent Systems for Molecular Biology and the 8th European Conference on Computational Biology, Stockholm, Sweden, June 27, 2009. BioMed Central (2009)