Can someone point me to a comprehensive historical list of microarrays from Affymetrix, and if possible, any synonyms for the array names?
I am working with some data that says it was generated with three different chip types: HT_HG-U133A, U133AAofAv2, and HG-U133A. I want to do probe-to-gene conversion and this nice one-to-one mapping tool is available for four chips: HG-U95Av2, HG-U133A, HG-U133 Plus 2.0, and U133 X3P.
Is HT_HG-U133A the same as HG-U133 Plus 2.0? Is U133AAofAv2 the same as U133 X3P? Or are they different?
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andbeonetraveler •
2 answers
The annotation files for HT_HG-U133A and HG-U133 Plus 2.0 are different.
Those annotation files might be useful for mapping probe IDs to gene IDs. You might investigate those annotations more closely to see where there are differences for probes of interest.
I did not check the other arrays in your question, but the Affymetrix website is likely the canonical source for information about their array products.
Array platform information from GEO:
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I've had to use EMBL's ArrayExpress database, especially its search feature and essentially compare the underlying GEO datasets to check if arrays are similar. I think a mapped list of microarrays would be helpful, but I'm not sure if it's feasible.