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Online web supplement for my publications.
Tamada, Y., Imoto, S., Araki, H., Nagasaki, M., Print, C., Charnock-Jones, D.S., and Miyano, S. Estimating genome-wide gene networks using nonparametric Bayesian network models on massively parallel computers, IEEE/ACM Transactions on Computational Biology and Bioinformatics, accepted, 2010.
See http://www.hgc.jp/~tamada/suppl/GWGN/.
Tamada, Y., Araki, H., Imoto, S., Nagasaki, M., Doi, A., Nakinishi, Y., Tomiyasu, Y., Yasuda, K., Dunmore, B., Sanders, D., Humphreys, S., Print, C., Charnock-Jones, D.S., Tashiro, K., Kuhara, S., Miyano, S.,
Unraveling dynamic activities of autoacine pathways that control drug-response transcriptome networks,
Pacific Symposium on Biocomputing (PSB2009), 14, 251-263, 2009.
See http://www.hgc.jp/~tamada/suppl/PSB2009/.
Tamada, Y., Bannai, H., Imoto, S., Katayama, T., Kanehisa, M., and Miyano, S.,
Utilizing evolutionary information and gene expression data for estimating gene networks with Bayesian network models,
Journal of Bioinformatics and Computational Biology, 3(6), 1295-1313, 2005.
See http://www.hgc.jp/~tamada/suppl/evo/.
Supplementary information for
Tamada, Y., Kim, S., Bannai, H., Imoto, S., Tashiro, K., Kuhara, S., and Miyano, S.,
Estimating gene networks from gene expression data by combining Bayesian network model with promoter element detection,
Bioinformatics, 19 Suppl.2, ii227-ii236, 2003.
We are sorry. Because a company has patents for the programs, we cannot distribute them.
You can freely download and use these files. We cannot distribute the real exprssion data of Saccharomyces cerevisiae here, sorry.
arrays.zip: simulated microarray data (6,905,860 bytes).
The file contains 1,000 simulated microarray files. Each array file consists of 16 genes with 100 arrays.
mc-sample-004-1.fasta: simulated upstream sequences (1,735 bytes).
The file includes the simulated upstream DNA sequence of 16 genes. The file is written in FASTA format.