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Image Analysis   
BioDiscovery BioDiscovery's ImaGene Image Analysis Software
ScanAlyze Brown Lab's Image Analysis software

Microarray Data Warehousing & Analysis
Affymetrix GeneChip LIMS data warehouse
Brown Lab, Stanford University Searchable database of published yeast microarray data
MicroArray Project, NIH Database schema and software tools for analysis of high-throughput gene expression data
Rosetta Inpharmatics Resolver data warehouse & analysis software
Silicon Genetics GeneSpring data warehouse & analysis software

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