Publications of KM Borgwardt

Stegle, O.; Denby, K.; Cooke, E.; Wild, D.; Ghahramani, Z.; Borgwardt, K.: A Robust Bayesian Two-Sample Test for Detecting Intervals of Differential Gene Expression in Microarray Time Series. Journal of Computational Biology 17 (3), pp. 355 - 367 (2010)

Stegle, O.; Drewe, P.; Bohnert, R.; Borgwardt, K.; Rätsch, G.: Statistical Tests for Detecting Differential RNA-Transcript Expression from Read Counts. Nature Precedings 2010 (2010)

Lippert, C.; Ghahramani, Z.; Borgwardt, K.: Gene function prediction from synthetic lethality networks via ranking on demand. Bioinformatics 26 (7), pp. 912 - 918 (2010)

Borgwardt, K.: Kernel Methods in Bioinformatics. In: Handbook of Statistical Bioinformatics, pp. 317 - 334 (Eds. Lu, H.-S.; Schölkopf, B.; Zhao, H.). Springer, Berlin, Germany (2011)

Feragen, A.; Petersen, J.; Grimm, D.; Dirksen, A.; Pedersen, J.; Borgwardt, K.; Bruijne, M.: Geometric tree kernels: Classification of COPD from airway tree geometry. In: Information Processing in Medical Imaging, pp. 171 - 183 (Eds. Gee, J.; Joshi, S.). 23rd International Conference on Information Processing in Medical Imaging (IPMI 2013), Asilomar, CA, USA, June 28, 2013 - July 03, 2013. Springer, Berlin, Germany (2013)

Sugiyama, M.; Borgwardt, K.: Measuring Statistical Dependence via the Mutual Information Dimension. In: Twenty-Third International Joint Conference on Artificial Intelligence (IJCAI 2013 ), pp. 1692 - 1698 (Ed. Rossi, F.). Twenty-Third International Joint Conference on Artificial Intelligence (IJCAI 2013 ), Beijing, China, August 03, 2013 - August 09, 2013. AAAI Press, Menlo Park, CA, USA (2013)

Stegle, O.; Lippert, C.; Mooij, J.; Lawrence, N.; Borgwardt, K.: Efficient inference in matrix-variate Gaussian models with iid observation noise. In: Advances in Neural Information Processing Systems 24, pp. 630 - 638 (Eds. Shawe-Taylor, J.; Zemel, R.; Bartlett, P.; Pereira, F.; Weinberger, K.). Twenty-Fifth Annual Conference on Neural Information Processing Systems (NIPS 2011), Granada, Spain, December 12, 2011 - December 17, 2011. Curran, Red Hook, NY, USA (2012)

Kam-Thong, T.; Pütz, B.; Karbalai, N.; Müller−Myhsok, B.; Borgwardt, K.: Epistasis detection on quantitative phenotypes by exhaustive enumeration using GPUs. 19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology (ISMB/ECCB 2011), Wien, Austria, July 17, 2011 - July 19, 2011. Bioinformatics 27 (13), pp. i214 - i221 (2011)

Lei, L.; Rakitsch, B.; Borgwardt, K.: ccSVM: correcting Support Vector Machines for confounding factors in biological data classification. 19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology (ISMB/ECCB 2011), Wien, Austria, July 17, 2011 - July 19, 2011. Bioinformatics 27 (13), pp. i342 - i348 (2011)

Stegle, O.; Denby, K.; Wild, D.; McHattie, S.; Mead, A.; Ghahramani, Z.; Borgwardt, K.: Discovering Temporal Patterns of Differential Gene Expression in Microarray Time Series. In: German Conference on Bioinformatics 2009 (GCB 2009), pp. 133 - 142 (Eds. Grosse, I.; Neumann, S.; Posch, S.; Schreiber, F.; Stadler, P.). German Conference on Bioinformatics 2009 (GCB 2009), Halle, Germany, September 28, 2009 - September 30, 2009. Gesellschaft für Informatik, Bonn, Germany (2009)

Kondor, R.; Shervashidze, N.; Borgwardt, K.: The graphlet spectrum. In: ICML '09: Proceedings of the 26th Annual International Conference on Machine Learning, pp. 529 - 536 (Eds. Danyluk, A.; Bottou, L.; Littman, M.). 26th International Conference on Machine Learning (ICML 2009), Montreal, Canada, June 14, 2009 - June 18, 2009. ACM Press, New York, NY, USA (2009)

Stegle, O.; Denby, K.; Wild, D.; Ghahramani, Z.; Borgwardt, K.: A robust Bayesian two-sample test for detecting intervals of differential gene expression in microarray time series. In: Research in Computational Molecular Biology: 13th Annual International Conference, RECOMB 2009, Tucson, AZ, USA, May 18-21, 2009, pp. 201 - 216 (Ed. Batzoglou, S.). 13th Annual International Conference on Research in Computational Molecular Biology (RECOMB 2009), Tucson, AZ, USA, May 18, 2009 - May 21, 2009. Springer, Berlin, Germany (2009)

Lippert, C.; Stegle, O.; Ghahramani, Z.; Borgwardt, K.: A kernel method for unsupervised structured network inference. In: Twelfth International Conference on Artificial Intelligence and Statistics (AIStats 2009), pp. 368 - 375 (Eds. Van Dyk, D.; Welling, M.). Twelfth International Conference on Artificial Intelligence and Statistics (AIStats 2009), Clearwater Beach, FL, USA, April 16, 2009 - April 18, 2009. MIT Press, Cambridge, MA, USA (2009)

Rödelsperger, C.; McGaughran, A.; Moreno, E.; Morgan, K.; Meyer, J.; Grimm, D.; Borgwardt, K.; Leaver, M.; Sommer, R.: Genome-wide patterns of selection in the nematode Pristionchus pacificus. In 15th Congress of the European Society for Evolutionary Biology (ESEB 2015), 52647, p. 237. 15th Congress of the European Society for Evolutionary Biology (ESEB 2015), Lausanne, Switzerland, August 10, 2015 - August 14, 2015. (2015)

Azencott, C.; Grimm, D.; Smoller, J.; Duncan, L.; Borgwardt, K.: Beware of circularity: A critical assessment of the state of the art in deleteriousness prediction of missense variants. In 64th Annual Meeting of the American Society of Human Genetics (ASHG 2014), 167, p. 56. 64th Annual Meeting of the American Society of Human Genetics (ASHG 2014), San Diego, CA, USA, October 18, 2014 - October 24, 2014. (2014)

Priebe, L.; Wolf, C.; Alexander, M.; Karbalai, N.; Fröhlich, H.; Stegle, O.; Kriegel, A.; Sander, T.; Czamara, D.; Mattheisen, M. et al.; Pütz, B.; Hillmer, A.; Altmann, A.; Kluck, N.; Schölkopf, B.; Borgwardt, K.; Schramm, J.; Hoffmann, P.; Becker, A.; Nöthen, M.; Müller-Myhsok, B.; Cichon, S.: Mapping genetic and epigenetic factors influencing human hippocampal gene expression. In European journal of human genetics, 20 (Supplement 1), C08-5, p. 27. European Human Genetics Conference (ESHG 2012), Nürnberg, Germany, June 23, 2012 - June 26, 2012. Nature Publishing Group (2012)

Klotzbücher, K.; Kobayashi, Y.; Shervashidze, N.; Stegle, O.; Müller-Myhsok, B.; Weigel, D.; Borgwardt, K.: Efficient branch-and-bound techniques for two-locus association mapping. In BMC Bioinformatics, 12 (Supplement 11), A3. Seventh International Society for Computational Biology (ISCB) Student Council Symposium 2011, Wien, Austria, July 15, 2011. BioMed Central (2011)

van Leeuwen, E.; Smouter, F.; Kam-Thong, T.; Karbalai, N.; Borgwardt, K.; van Duijn, M.; Karssen, L.; Müller-Myhsok, B.: Detecting SNP interactions associated with HDL using GPUs. European Human Genetics Conference (ESHG 2012), Nürnberg, Germany (2012)

Grimm, D.; Greshake, B.; Stegle, O.; Lippert, C.; Schölkopf, B.; Weigel, D.; Borgwardt, K.: easyGWAS: A central resource for efficient performance of genome-wide association studies. (2012)

Grimm, D.; Hagmann, J.; Koenig, D.; Weigel, D.; Borgwardt, K.: Support Vector Machines for finding deletions and short insertions using paired-end short reads. 19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology (ISMB ECCB 2011), Wien, Austria (2011)