Name SAMURAI
Aliases System for Assembling Modules by Ultra Rapid Algorithm on Itemsets
Description

Gene expression networks have different gene components depending on the cell types. SAMURAI 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.suspending for relocation. (confirmation on 2012/11/05)

Type Tool
Main Institutes of management "Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST)"
Country of the Institute Japan
URL of the site http://samurai.cbrc.jp/cgi-bin/index.cgi
Interface GUI
Input

Output

Input example

"Select database and evaluation. Input the query in the text box and parameter, and then push "Extract Module" button. "

Keyword
Index Terms?biclustering | closed itemset | gene expression module | LCM (Linear time Closed itemset Miner)
Amount of the all data for download(Mbyte) | Method to obtain the all data. "1,707|Download from the page http://samurai.cbrc.jp/download/"
External resources (databases) in building the product. KEGG | GO | NCBI
Data type Gene expression
Biological species in the main concern
All species
Conditions of use None
Frequency of updates (in last two years) 5
Last date of updates (date of confirmation) 2008/08/21 (2019/07/09)
Main IDs used in the products UniGene ID
How to make a link to get access to each IDs. None
external databases to which this database/tool have links

NCBI (http://www.ncbi.nlm.nih.gov/unigene)

Published papers (PubMed IDs)

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 | 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 | Yoshifumi Okada, Wataru Fujibuchi and Paul Horton, "A biclustering method for gene expression module discovery using closed itemset enumeration algorithm", IPSJ Transactions on Bioinformatics, Vol. 48 no. SIG 5(TBIO2), pp.39-48, 2007.

Operational Status

Available