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Image Analysis   
BioDiscovery BioDiscovery's ImaGene Image Analysis Software http://www.biodiscovery.com/software.html
ScanAlyze Brown Lab's Image Analysis software http://bronzino.stanford.edu/ScanAlyze

Microarray Data Warehousing & Analysis
Affymetrix GeneChip LIMS data warehouse http://www.affymetrix.com/products/lims/lims.html
Brown Lab, Stanford University Searchable database of published yeast microarray data http://cmgm.stanford.edu/pbrown/explore/
MicroArray Project, NIH Database schema and software tools for analysis of high-throughput gene expression data http://www.nhgri.nih.gov/DIR/LCG/15K/HTML/dbase.html
Rosetta Inpharmatics Resolver data warehouse & analysis software http://www.rosetta.org/
Silicon Genetics GeneSpring data warehouse & analysis software http://www.sigenetics.com/GeneSpring/Overview.htm

Reference: Nature Genetics 21:51-55 (1999)