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title
Gene expression networks have different gene components depending on the cell types. SAMURAI (System for Assembling Modules by Ultra Rapid Algorithm on Itemsets) is a tool for finding such minimal functional units of genes called modules from large-scale gene expression data. Modules are searched against by an ultra fast and exhaustive biclustering method using a closed itemset mining algorithm.
Search Methods [tools]
[SAMURAI-Progressive]
This mode receives a query profile and searches for modules, each of which is a set of experiments exhibiting a same expression pattern over a subset of genes.
  • Yoshifumi Okada and Wataru Fujibuchi, "Mining a Large-scale Microarray Database for Similar Gene Expression Modules to Find Distant Relationships between Down Syndrome and Huntington's Disease", CAMDA 2007, Valensia, Spain, 2007
[SAMURAI-Matrix]
This mode searches for modules where genes of each module exhibits a common expression pattern across experiments.
  • Yoshifumi Okada, Kosaku Okubo, Paul Horton and Wataru Fujibuchi, "Exhaustive Search Method of Gene Expression Modules and Its Application to Human Tissue Data", IAENG International Journal of Computer Science, Vol. 34 Issue 1, pp.119-126, 2007
Software [archives]
Software Downloading
Download SAMURAI programs



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© Sequence Analysis Team, Computational Biology Research Center