Publications of H Saigo

Journal Article (7)

Journal Article
Saigo, H.; Nowozin, S.; Kadowaki, T.; Kudo, T.; Tsuda, K.: gBoost: A Mathematical Programming Approach to Graph Classification and Regression. Machine Learning 75 (1), pp. 69 - 89 (2008)
Journal Article
Saigo, H.; Uno, T.; Tsuda, K.: Mining complex genotypic features for predicting HIV-1 drug resistance. Bioinformatics 23 (18), pp. 2455 - 2462 (2007)
Journal Article
Saigo, H.; Vert, J.-P.; Akutsu, T.: Optimizing amino acid substitution matrices with a local alignment kernel. BMC Bioinformatics 7, 246, pp. 1 - 12 (2006)
Journal Article
Cheng, J.; Saigo, H.; Baldi, P.: Large-scale prediction of disulphide bridges using kernel methods, two-dimensional recursive neural networks, and weighted graph matching. Proteins: Structure, Function, and Bioinformatics 62 (3), pp. 617 - 629 (2006)
Journal Article
Matsuda, S.; Vert, J.-P.; Saigo, H.; Ueda , N.; Toh, H.; Akutsu, T.: A novel representation of protein sequences for prediction of subcellular location using support vector machines. Protein Science 14 (11), pp. 2804 - 2813 (2005)
Journal Article
Ralaivola, L.; Swamidass , J.; Saigo, H.; Baldi, P.: Graph Kernels for Chemical Informatics. Neural networks 18 (8), pp. 1093 - 1110 (2005)
Journal Article
Saigo, H.; Vert , J.-P.; Ueda, N.; Akutsu, T.: Protein homology detection using string alignment kernels. Bioinformatics 20 (11), pp. 1682 - 1689 (2004)

Book Chapter (1)

Book Chapter
Vert, J.-P.; Saigo, H.; Akutsu, T.: Local Alignment Kernels for Biological Sequences. In: Kernel Methods in Computational Biology, pp. 131 - 153 (Eds. Schölkopf, B.; Tsuda, K.; Vert, J.-P.). MIT Press, Cambridge, MA, (2004)

Conference Paper (4)

Conference Paper
Chiappa, S.; Saigo, H.; Tsuda, K.: A Bayesian Approach to Graph Regression with Relevant Subgraph Selection. In: 2009 SIAM International Conference on Data Mining, pp. 295 - 304 (Eds. Park, H.; Parthasarathy, S.; Liu, H.). SIAM International Conference on Data Mining (SDM 2009), Sparks, NV, USA, April 30, 2009 - May 02, 2009. Society for Industrial and Applied Mathematics, Philadelphia, PA, USA (2009)
Conference Paper
Saigo, H.; Kadowaki, T.; Tsuda, K.: A Linear Programming Approach for Molecular QSAR analysis. In: MLG 2006: Proceedings of the International Workshop on Mining and Learning with Graphs in conjunction with ECML/PKDD 2006, pp. 85 - 96 (Eds. Gärtner, T.; Garriga, G.; Meinl, T.). International Workshop on Mining and Learning with Graphs 2006 (MLG 2006), Berlin, Germany, September 18, 2006. Bibliothek der Universität Konstanz, Konstanz, Germany (2009)
Conference Paper
Saigo, H.; Tsuda, K.: Iterative Subgraph Mining for Principal Component Analysis. In: 2008 Eighth IEEE International Conference on Data Mining, pp. 1007 - 1012 (Eds. Giannotti, F.; Gunopulos, D.; Turini, F.; Zaniolo, C.; Ramakrishnan, N. et al.). Eighth IEEE International Conference on Data Mining (ICDM 2008), Pisa, Italy, December 16, 2008 - December 19, 2008. IEEE, Piscataway, NJ, USA (2008)
Conference Paper
Saigo, H.; Krämer, N.; Tsuda, K.: Partial Least Squares Regression for Graph Mining. In: KDD '08: Proceedings of the 14th ACM SIGKDD international conference on Knowledge discovery and data mining, pp. 578 - 586 (Eds. Li, Y.; Liu, B.; Sarawagi, S.). 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Las Vegas, NV, USA, August 24, 2008 - August 27, 2008. ACM Press, New York, NY, USA (2008)

Talk (3)

Saigo, H.; Hattori, M.; Tsuda, K.: Reaction graph kernels for discovering missing enzymes in the plant secondary metabolism. NIPS 2007 Workshop on Machine Learning in Computational Biology (MLCB 2007), Whistler, BC, Canada (2007)
Tsuda, K.; Saigo, H.; Nowozin, S.; Kudo , T.; Uno, T.: Mathematical Programming Methods for Learning from Structured Data: Applications to Molecular QSAR Analysis, HIV Drug Resistance Prediction, and Image Categorisation. Joint Bioinformatics Education Program: Kyoto University and University of Tokyo, Kyoto, Japan (2007)
Saigo, H.; Kadowaki , T.; Kudo, T.; Tsuda, K.: Graph boosting for molecular QSAR analysis. NIPS 2006 Workshop on New Problems and Methods in Computational Biology (MLCB 2006), Vancouver, BC, Canada (2006)

Poster (1)

Saigo, H.; Uno, T.; Tsuda, K.: Mining complex genotypic features for predicting HIV-1 drug resistance. 15th Annual International Conference on Intelligent Systems for Molecular Biology & 6th European Conference on Computational Biology (ISMB/ECCB 2007), Wien, Austria (2007)

Thesis - PhD (1)

Thesis - PhD
Saigo, H.: Local Alignment Kernels for Protein Homology Detection. Dissertation, Kyoto University, Kyoto, Japan (2006)
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