• GRID IT Microarray information site, including courses
• Animation of the microarray process - Davidson
• Alvis Brazma; Microarray informatics director at EBI -homepage. Presentations, links, programs, etc. and Gene Expression Links 

Analysis tools:

•  Silicon Genetics: Genespring, GeNet, etc. 
• Rosetta Informatics, Inc. : Rosetta Resolver, data, arrays, etc. This group has developed GEM

Microarrays.org protocols and freeware for microarray analysis

Expression profiler - EBIs set of tools for microarray analysis

Gene Expression Omnibus: NIH Data Upload Site for array comparisons 

ExpressDB: Harvard's relational database of yeast RNA expression data developed by George Church's lab, also supplemental material to his Genome Research article "Systematic management and analysis of yeast gene expression data." Genome Res. 10:431-445 

ChipDB - the Whitehead Institute's array database - set intersection and sample clustering tools

Microarray explorer: NCI program for microarray analysis

 

 MICROARRAY DATA FOR DOWNLOADS

EMBL microarray data depositiory

• Functional Discovery via a Compendium of Expression Profiles. Cell 102, 109-126 (2000). Rosetta. Hughes, et al. (yeast data)

• Dissecting the regulatory circuitry of a eukaryotic genome Cell 95: 717-728 (1998) Hostege, et al. (yeast data)

• Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 403:503- (2000)

• Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray analysis. Mol Biol Cell 9:3273-3297 (1998), Spellman et al. (This is the MBC site link.)

 

• Stanford Microarray Database publication links, searches, yeast and human data.

• Links to B-cell lympohoma data, molecular portraits of human breast tumors, singular value decomposition, use of arrays to identify membrane-associated gene products, etc.
• Software and tools.
• Microarray links - labs, companies, general info. Andreas Matern's link has papers, etc. EBI's link has additional info.
• Pat Brown's lab (this also connects to data downloads from the Brown lab, when available)