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Bioinformatics. 2001 Apr;17(4):369-70.

J-Express: exploring gene expression data using Java.

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  • 1Department of Informatics, University of Bergen, HIB, N5020 Bergen, Norway.


J-Express is a Java application that allows the user to analyze gene expression (microarray) data in a flexible way giving access to multidimensional scaling, clustering, and visualization methods in an integrated manner. Specifically, J-Express includes implementations of hierarchical clustering, k-means, principal component analysis, and self-organizing maps. At present, it does not include methods for comparing two or more experiments for differentially expressed genes. The application is completely portable and requires only that a Java runtime environment 1.2 is installed on the system. Its efficiency allows interactive clustering of thousands of expression profiles on standard personal computers.

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