Papers - TAMADA Yoshinori
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Estimating Genome-Wide Gene Networks Using Nonparametric Bayesian Network Models on Massively Parallel Computers
Y Tamada, S Imoto, H Araki, M Nagasaki, C Print, D S Charnock-Jones, S Miyano
IEEE/ACM Transactions on Computational Biology and Bioinformatics 8 ( 3 ) 683 - 697 2011.5
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Parallel algorithm for learning optimal bayesian network structure
Tamada, Y., Imoto, S., Miyano, S.
Journal of Machine Learning Research 12 2011
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SiGN-SSM: Open source parallel software for estimating gene networks with state space models
Tamada, Y., Yamaguchi, R., Imoto, S., Hirose, O., Yoshida, R., Nagasaki, M., Miyano, S.
Bioinformatics 27 ( 8 ) 1172 - 3 2011
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Searching optimal Bayesian network structure on constraint search space: Super-structure approach
Imoto, S., Kojima, K., Perrier, E., Tamada, Y., Miyano, S.
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 6797 LNAI 2011
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Collocation-based sparse estimation for constructing dynamic gene networks.
Shimamura T, Imoto S, Nagasaki M, Yamauchi M, Yamaguchi R, Fujita A, Tamada Y, Gotoh N, Miyano S
Genome informatics. International Conference on Genome Informatics 24 164 - 78 2010
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Analysis of PPARα-dependent and PPARα-independent transcript regulation following fenofibrate treatment of human endothelial cells
Hiromitsu Araki, Yoshinori Tamada, Seiya Imoto, Ben Dunmore, Deborah Sanders, Sally Humphrey, Masao Nagasaki, Atsushi Doi, Yukiko Nakanishi, Kaori Yasuda, Yuki Tomiyasu, Kousuke Tashiro, Cristin Print, D. Stephen Charnock-Jones, Satoru Kuhara, Satoru Miyano
Angiogenesis 12 ( 3 ) 221 - 229 2009.4
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Gene networks viewed through two models
Miyano, S., Yamaguchi, R., Tamada, Y., Nagasaki, M., Imoto, S.
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5462 LNBI 2009
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Unraveling dynamic activities of autocrine pathways that control drug-response transcriptome networks.
Yoshinori Tamada, Hiromitsu Araki, Seiya Imoto, Masao Nagasaki, Atsushi Doi, Yukiko Nakanishi, Yuki Tomiyasu, Kaori Yasuda, Ben Dunmore, Deborah Sanders, Sally Humphreys, Cristin Print, D Stephen Charnock-Jones, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 251 - 63 2009
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A novel strategy to search conserved transcription factor binding sites among coexpressing genes in human.
Hatanaka Y, Nagasaki M, Yamaguchi R, Obayashi T, Numata K, Fujita A, Shimamura T, Tamada Y, Imoto S, Kinoshita K, Nakai K, Miyano S
Genome informatics. International Conference on Genome Informatics 20 212 - 21 2008
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Analysis of gene networks for drug target discovery and validation.
Imoto S, Tamada Y, Savoie CJ, Miyano S
Methods in molecular biology (Clifton, N.J.) 360 33 - 56 2007
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Understanding endothelial cell apoptosis: What can the transcriptome, glycome and proteome reveal?
Affara, M., Dunmore, B., Savoie, C., Imoto, S., Tamada, Y., Araki, H., Charnock-Jones, D.S., Miyano, S., Print, C.
Philosophical Transactions of the Royal Society B: Biological Sciences 362 ( 1484 ) 1469 - 87 2007
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Graph Mining and Its Application to Statistical Modeling
54 ( 2 ) 315 - 331 2006.12
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Computational strategy for discovering druggable gene networks from genome-wide RNA expression profiles.
Seiya Imoto, Yoshinori Tamada, Hiromitsu Araki, Kaori Yasuda, Cristin G Print, Stephen D Charnock-Jones, Deborah Sanders, Christopher J Savoie, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 559 - 71 2006
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Utilizing Heterogeneous Genomic Data to Estimate Gene Networks
54 ( 2 ) 333 - 356 2006
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Genomic data assimilation for estimating hybrid functional Petri net from time-course gene expression data.
Nagasaki M, Yamaguchi R, Yoshida R, Imoto S, Doi A, Tamada Y, Matsuno H, Miyano S, Higuchi T
Genome informatics. International Conference on Genome Informatics 17 ( 1 ) 46 - 61 2006
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From closed tree mining towards closed DAG mining
1 - 7 2006
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Estimating gene networks from expression data and binding location data via Boolean networks
O Hirose, N Nariai, Y Tamada, H Bannai, S Imoto, S Miyano
COMPUTATIONAL SCIENCE AND ITS APPLICATIONS - ICCSA 2005, PT 3 3482 349 - 356 2005
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Utilizing evolutionary information and gene expression data for estimating gene networks with Bayesian network models
Tamada, Y., Bannai, H., Imoto, S., Katayama, T., Kanehisa, M., Miyano, S.
Journal of Bioinformatics and Computational Biology 3 ( 6 ) 1295 - 1313 2005
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Identifying drug active pathways from gene networks estimated by gene expression data.
Tamada Y, Imoto S, Tashiro K, Kuhara S, Miyano S
Genome informatics. International Conference on Genome Informatics 16 ( 1 ) 182 - 91 2005
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Estimating gene regulatory networks and protein-protein interactions of Saccharomyces cerevisiae from multiple genome-wide data
Nariai, N., Tamada, Y., Imoto, S., Miyano, S.
Bioinformatics 21 ( SUPPL. 2 ) ii206 - 12 2005