Where can I get a list of genes represented on GeneChip® expression arrays?
The sequences represented on all commercial GeneChip® expression arrays can be obtained from the Affymetrix website using the NetAffx™ Analysis Center or the annotation and sequence files.
Annotation and sequence files contain the complete entries for all probe sets on the array, taken from the NetAffx Analysis Center. They are intended to be used primarily in spreadsheet applications and database programs (such as SQL databases). Interactive and batch queries can be performed in the NetAffx Analysis Center to find information for individual probe sets of interest.
Annotation files are available for most Affymetrix GeneChip® Arrays. They are listed with other available support material on the various array support pages.
Descriptions of Annotation Formats:
- MAGE-ML XML Annotations
Manual, Probe Set Data in MAGE-ML Format - CSV Annotations
Manual, Probe Set Data in Tabular Format - Alignments
Manual, Alignments to Genome in PSL Format