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5.4 years ago
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I've got a lncRNA NEAT1, and I want to see its expression in one dataset from hgu133a2 platform. I found the affymetrix id '214657_s_at' was mapped to NEAT1 in affymetrix annotation release 'HG-U133A_2 Annotations, CSV format, Release 36 (19 MB, 4/13/16)'. But when I query the probeset using the following code
getEG('214657_s_at', 'hgu133a2.db')
I got an NA return. I'm wondering the difference between hgu133a2.db and the annotation release from affymetrix. Should I continue to use affymetrix annotation instead of hgu133a2.db?
Indeed, I never use those annotation DBs because they are frequently out of date. If I want the latest information, I take it direct from Affymetrix's website.