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The download links above will take you to a data download table specific for each experiment. Each table contains links to two types of files. One is a simple text format (*.txt) containing expression intensities (Avg Diff) and other raw data for your own statistical analysis. Data generated before Affymetrix MAS 5.0 software have been reanalyzed and those text files are under the "MAS 5.0 text" column. The text file with the old algorithm can still be obtained in the "Genechip Suite - MAS 4.0 text" column. Read affymetrix's description about the MAS 5.0 algorithm. All microarray data on our website are in complience with our quality control criteria.

The second file type is a zip that compresses the *.dat and *.exp raw output files. Please note that *.dat files are very large and can take several minutes to download. In addition they are only viewable with Affymetrix software. Zip files can be unzipped using freely available tools such as WinZip(PC) or StuffIt Expander(Mac). At the top of each experimental downloadable data page there is a link to our ftp site where these files as well as *.CEL files can be downloaded as a group.

The array annotation links are excel files that contain Locuslink numbers and gene names, GenBank accessions, GEO (gene ontology), and original affymetrix descriptions. These are current as of 10/25/02, for an updated resource go to Unchip. To download these excel files you can right click on the hyperlink and choose "Save Target As...".