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Tsuyoshi Kato
 

  Laboratory
Japanese
 
Profile
Research Interests
Publications
Software
Teaching
Links
 
 

Publications
  Reiji Teramoto and Tsuyoshi Kato, Transfer learning for cytochrome P450 isozyme selectivity prediction, Journal of Bioinformatics and Computational Biology, accepted.  
  Jaak Simm, Masashi Sugiyama, and Tsuyoshi Kato,
Computationally efficient multi-task learning with least-squares probabilistic classifiers.
IPSJ Transactions on Computer Vision and Applications, Vol. 3, pp.1-8 (2011). 		 
  Tsuyoshi. Kato and Nozomi Nagano: Discriminative Structural Approaches for Enzyme Active-Site Prediction. BMC Bioinformatics, Vol 12(Supple 1), S49 (2011)., presented at The Ninth Asia Pacific Bioinformatics Conference (APBC2011).  
  Tsuyoshi Kato, Kazuhiro Suwa and Nozomi Nagano: Parametric Templates: A New Enzyme Active-Site Prediction Algorithm. In conjunction with the 10th IEEE International Conference on Data Mining (ICDM 2010) Biological Data Mining and its Applications in Healthcare.  
  Tsuyoshi Kato and Nozomi Nagano: Metric Learning for Enzyme Active-Site Search, Bioinformatics (2010) 26 (21): 2698-2704. doi: 10.1093/bioinformatics/btq519 , [pdf].  
  Tsuyoshi Kato and Wataru Fujibuchi: Kernel Classification Methods for Cancer Microarray Data, in Medical Biostatistics for Complex Diseases, Wiley, ISBN: 978-3-527-32585-6, 2010 June.  
 

Hiromi Arai, Naoya Tochio, Tsuyoshi Kato, Takanori Kigawa and Masayuki Yamamura:
An accurate prediction method for protein structural class from signal patterns of NMR spectra in the absence of chemical shift assignments,
10th International Conference on Bioinformatics and Bioengineering (BIBE-2010), pp.32-37, Philadelphia, USA (2010).

  
  Tsuyoshi Kato, Hisashi Kashima, Masashi Sugiyama, Kiyoshi Asai:
Conic Programming for Multi-Task Learning,
IEEE Transactions on Knowledge and Data Enginieering, Vol.22, No.7, pp. 957-968 (2010). 		 
 

Tsuyoshi Kato, Kinya Okada, Hisashi Kashima, Masashi Sugiyama:
A Transfer Learning Approach and Selective Integration of Multiple Types of Assays for Biological Network Inference,
International Journal of Knowledge Discovery in Bioinformatics (IJKDB), vol. 1, issue 1, pp.66--80, 2010. [pdf]

  
 

Hisashi Kashima, Tsuyoshi Kato, Yoshihiro Yamanishi, Masashi Sugiyama and Koji Tsuda:
Simultaneous Prediction of Biological Networks of Multiple Species from Genome-wide Data and Evolutionary Information: A Semi-supervised Approach,
Bioinformatics, Vol.25, No.22, pp.2962-2968, 2009.11. [pdf]

  
  Hisashi Kashima, Tsuyoshi Ide, Tsuyoshi Kato and Masashi Sugiyama:
Recent Advances and Trends in Large-scale Kernel Methods (invited paper),
IEICE Transactions on on Information and Systems, 2009, Vol.E92-D No.7 pp.1338-1353. [pdf]		  
  Hisashi Kashima, Tsuyoshi Kato, Yoshihiro Yamanishi, Masashi Sugiyama and Koji Tsuda: Link Propagation: A Fast Semi-supervised Learning Algorithm for Link Prediction, In Proc. 2009 SIAM Conference on Data Mining (SDM), pp.1099-1110, Sparks, Nevada. [pdf]  
 

Tsuyoshi Kato, Hisashi Kashima, and Masashi Sugiyama:
Robust Label Propagation on Multiple Networks,
IEEE Transactions on Neural Networks, Vol.20, No.1, pp.35--44, 2009. [pdf]

 
  Tsuyoshi Kato, Hisashi Kashima, and Masashi Sugiyama:
Integration of multiple networks for label propagation,
2008 SIAM International Conference on Data Mining (SDM08), pp.716-726 [pdf][ppt]. 		 
 

Tsuyoshi Kato, Hisashi Kashima, Masashi Sugiyama, Kiyoshi Asai:
Multi-task learning via conic programming,
In J. C. Platt, D. Koller, Y. Singer, and S. Roweis (Eds.), Advances in Neural Information Processing Systems 20, pp.737-744, Cambridge, MA, MIT Press, 2008, presented at Twenty-First Annual Conference on Neural Information Processing Systems (NIPS2007) [pdf].

 
  Tsuyoshi Kato, Hisashi Kashima, and Masashi Sugiyama:
Probabilistic label propagation on multiple networks,
IBIS2007, pp.43--48. 		 
  Wataru Fujibuchi* and Tsuyoshi Kato*:
Classification of Heterogeneous Microarray Data by Maximum Entropy Kernel,
BMC Bioinformatics, 8:267, July 2007, (*These authors contributed equally.) [pdf][suppl][software]
  
  Tsuyoshi Kato, Wataru Fujibuchi, Kiyoshi Asai: Learning Kernels from Distance Constraints, IPSJ Journal, Vol.47 No.SIG10, pp.1--11, July, 2006.
 
  Tsuyoshi Kato, Wataru Fujibuchi, Kiyoshi Asai:
Kernels for Noisy Microarray Data,
Meeting on Image Recognition and Understanding 2006.		  
  Tsuyoshi Kato, Wataru Fujibuchi, Kiyoshi Asai:
Kernels for Noisy Microarray Data,
CBRC Technical Report, AIST-02-J00001-8.Jun. 12, 2006. pdf
  
  Tsuyoshi Kato, Kiyoshi Asai, Paul B. Horton, Koji Tsuda, Wataru Fujibuchi: Network-based Noise Reduction for Microarray Data, Subspace 2006.  
  Tsuyoshi Kato, Yukio Murata, Koh Miura, Kiyoshi Asai, Paul B. Horton, Koji Tsuda, Wataru Fujibuchi:
Drug-response prediction from microarray using network-based de-noising,
IPSJ SIG technical reports, Vol.2006, No.64(20060615) pp. 47-52, 2006-BIO-5-(8). Information Processing Society of Japan (IPSJ) ISSN:09196072, Jun, 2006		  
  Tsuyoshi Kato, Yukio Murata, Koh Miura, Kiyoshi Asai, Paul B. Horton, Koji Tsuda, Wataru Fujibuchi:
Network-based de-noising improves prediction from microarray data,
BMC Bioinformatics, vol. 7(Suppl 1):S4, March, 2006.pdf		  
  Tsuyoshi Kato, Wataru Fujibuchi, Kiyoshi Asai:
Kernel construction from distance constraints,
CBRC Technical Report, AIST02-J00001-7, pp.1--13, Jun. 21, 2005.		  
  Tsuyoshi Kato, Wataru Fujibuchi, Kiyoshi Asai:
Kernel construction from distance constraints,
Meeting on Image Recognition and Understanding 2005.		  
  Tsuyoshi Kato, Koji Tsuda, Kiyoshi Asai: Selective integration of multiple biological data for supervised network inference Bioinformatics Advance Access published on February 22, 2005. Bioinformatics, vol. 21, issue 10, pp.2488--2495, May 15 2005, doi:10.1093/bioinformatics/bti339.pdf  
  Tsuyoshi Kato, Koji Tsuda, Kiyoshi Asai:
Biological network inference via kernel matrix completion,
The institute of electronics, information and communication engineers (IEICE) Technical Report, NLC2004-97, PRMU2004-179, Tokyo, pp.1--6, Feb, 2005. 		 
  Tsuyoshi Kato, Koji Tsuda, Kiyoshi Asai:
Selective Integration of Multiple Genomic Data for Biological Network Inference,
In Proceeding of Genome Informatics 15, Yokohama, P026, Dec., 2004. 		 
  Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai:
A new variational framework for rigid-body alignment,
Structural, Syntactic, and Statistical Pattern Recognition, pp.171--179, Aug., 2004,pdf		  
  Taishin Kin, Tsuyoshi Kato and Koji Tsuda:
Protein Classification via Kernel Matrix Completion,
(Eds.) Schoelkopf, B., K. Tsuda and J.P. Vert , Kernel Methods in Computational Biology, pp.261--274, 2004 		 
  Tsuyoshi Kato, Taishin Kin, Kentaro Tomii, Koji Tsuda, Kiyoshi Asai:
A kernel-based approach for estimating structural similarities from sequences,
CBRC Technical Report, AIST02-J00001-3, pp.1--19, Jan. 20, 2004. 		 
  Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai:
Maximum likelihood superposition of protein structures,
In Proceeding of Genome Informatics 14, pp.488--489, Dec., 2003. 		 
  Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai:
Variational estimation of rigid-body transformation of protein structures,
CBRC Technical Report, AIST02-J00001-2, pp.1-12, Sept. 8, 2003. 		 
  Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai:
Variational inference for estimating direction and position of sequence via HMM and its application to protein structure comparison,
The institute of electronics, information and communication engineers (IEICE) Technical Report, PRMU2003-31, pp.29--34, June, 2003.