The institute for genomics research (TIGR) microarray resources: http://www.tigr.org/tdb/microarray/. A nice compilation of microarray-related information and links. TIGR also provides free software for processing, analyzing, and presenting array data. http://www.tigr.org/ software/#m
Stanford microarray resources: http://genome-www5.stanford.edu/resources/. Another good collection of array resources and software.
Eisen lab software: http://rana.lbl.gov/EisenSoftware. htm. The classic Cluster and Treeview software along with additional software for array analysis and data presentation.
Significance analysis of microarrays (SAM): http:// www-stat.stanford.edu/~tibs/SAM/. Statistical software for detecting significant changes in gene expression from microarray data. Can be used as a Microsoft Excel plug-in.
Bioconductor: http://www.bioconductor.org/. Open source software for bioinformatic analyses. More powerful than most of the other free software, but requires R, a software environment for statistical computing and graphics.
BASE BioArray Software Environment: http://base. thep.lu.se/index.phtml. An open-source database system for storage, retrieval, and analysis of microarray data.
GeneX-Lite: http://www.ncgr.org/genex/. Relational database system for managing, analyzing, and visualizing array data.
Gene Expression Omnibus: http://www.ncbi.nlm.nih. gov/geo/. NCBI database for depositing and retrieving microarray data.
ArrayExpress: http://www.ebi.ac.uk/arrayexpress/. European bioinformatics institute database for depositing and retrieving microarray data.
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