GeneXplorer is a web application that allows clustered microarray data to be browsed interactively via the web, and can be used either for research purposes, or for providing web supplements to accompany microarray publication.
Demo & Screenshots
GeneXplorer has been used to provide several web supplements for papers arising from data in the Stanford Microarray Database. As an example, see:
J Lapointe, C Li, JP Higgins, M van de Rijn, E Bair, K Montgomery, M Ferrari, L Egevad, W Rayford, U Bergerheim, et al: Gene expression profiling identifies clinically relevant subtypes of prostate cancer. Proc Natl Acad Sci U S A 2004, 101:811-6.
It has been published in:
GeneXplorer is written in Perl, and thus requires a system that is capable of running Perl. GeneXplorer also requires the following Perl modules:
In addition, GeneXplorer requires the C-program, correlations, which is included in the distribution. This must be compiled with an ANSI compatible compiler, such as gcc.
See the README file at the download site (see below).
As of January 2009, GeneXplorer is still actively supported (see Contact below), but we are not currently developing any new features for it. One thing that we may consider in the future is allowing it to use the "extended pcl" file, which allows arbitrary numbers of columns of annotation, as we are trying to do this throughout our microarray infrastructure.
GeneXplorer is freely available under the MIT license from CPAN.