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PubMedScan

Summary PubMedScan is a automatic paper recommendation system for newly published PubMed papers that are related to your interest. This system has the following features: 1) queries are given by a list of PMIDs to search for related articles rather than by keywords or phrases; 2) related papers are reported daily by E-mail and stored in the system; 3) the similarity score between two articles are, currently, scored by PubMed "Related articles" service; and 4) the system can be used through either Web (ver 2.0) or software for local installation (ver 1.1). The local version can be installed on a UNIX machine such as Linux and Macintosh. PHP, MySQL, Apache and Perl modules are required. This system is key-word free, therefore effective to compensate for the keyword search in surveying the papers. To collect the PMIDs of your interest easily from your PDF or text files, we also provide software "PMID-Exporactor".
Data type Articles registered in PubMed

SAMURAI

Summary 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.
Data type Gene expression

SGCAL

Summary We have developed a web-based tool named SGCAL (Structural Glycomics CALculations). SGCAL is capable of building a 3D structure from oligosaccharide sequence information and of visualizing the calculated results and the experimental MS data, thereby supporting investigations on correlations between the structure of oligosaccharides and their fragmentation patterns.
Data type Sugar chain

SNP-system

Summary We developed SNP-system which is unified in common interface and released it on the web.
Data type DNA-sequence

THE MICROARRAY ANALYSIS SYSTEM - TREBAX -

Summary The Micro array analysis system TREBAX is a computer system that makes possible the analysis and evaluation of genetic expression profiles, molecular biological function and effective assignment of corresponding DNA nucleotides by mainly manipulating data derived from spot type array methods (cDNA Micro array methods). Moreover, TREBAX can also be applied to the analysis of any type of data other than cDNA micro array data by only modifying the respective input format. (Quoted from http://kanaya.naist.jp/Web/software/trebax/manual/Emanual.pdf)
Data type Gene expression Microarray data

Hyperlink Management System

Summary Hyperlink Management System is an original tool for setting hyperlinks to major databases related to human genes and proteins worldwide. For details, please refer to the document here (http://staff.aist.go.jp/t.imanishi/about_hms.html).
Data type Data identifiers (IDs)
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