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#1
11-20-2012, 09:10 AM
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 Normalisation issue? Hi, I'm quite new to microarray analysis and was hoping to get some thoughts on an issue I'm having. I have results from Mouse Gene ST 1.0 chips, essentially grouped into tumour and non-tumour samples. I get a weird result when looking at my differentially expressed probes, I have 5 upregulated out of the first 500 listed. I was wondering if this could be a normalisation issue. When I look at the signal histogram from the chips after normalisation (attached) with affymetrix expression console I can see that the histograms don't overlap. My interpretation of this is that the samples aren't normalising. Is this correct? Is this why I'm getting my strange result? What can I do to overcome this issue?  |
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