Question: Bright spot on affymetrix chips
gravatar for oganm
5.0 years ago by
oganm60 wrote:

I am doing some quality control on a bunch of affymetrix chip and I noticed a consecutively bright spot in every single one of these chips. I assume this has a technical use since I observed this in different chips. Can anyone tell me what it is? The image below is an example with exceptionally low overall intensity but that spot in the middle is shiny as always. Thus particular chip is Affymetrix U133 Plus 2.0. The image is generated by image() functionof R on the affy object.

affymetrix microarray rna • 1.2k views
ADD COMMENTlink modified 5.0 years ago by Dan D7.0k • written 5.0 years ago by oganm60

Its good to contact Affymetrix tech support for such questions. 

ADD REPLYlink written 5.0 years ago by geek_y10k
gravatar for Dan D
5.0 years ago by
Dan D7.0k
Dan D7.0k wrote:

That's the control probe set. You should see that on every chip, so it's useful as a QC indicator.

ADD COMMENTlink written 5.0 years ago by Dan D7.0k
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