[BioC] Array Set - Multiple Testing Problem
Steve Lianoglou
mailinglist.honeypot at gmail.com
Fri Sep 11 18:17:51 CEST 2009
Howdy,
On Sep 11, 2009, at 12:01 PM, Sean Davis wrote:
> The classic example that I can think of is the hgu133a and b where
> the probes on the a array were "refseq-based" and so represented
> well-validated genes while the probes on the b array were generally
> ESTs and, being less "qualified" as probesets, had much different
> error qualities than those on the a array. If using something like
> limma or SAM that has some sort of "variance pooling", the variances
> will be inflated in one array of the set and decreased in the other
> array of the set.
Wow ... I never used them, but I didn't know that part of hgu133*'s
history ... thanks for the lesson!
> I hope that helps. I have done a particularly bad job of explaining
> myself above--sorry about confusion.
Sure it helped, thanks.
-steve
--
Steve Lianoglou
Graduate Student: Computational Systems Biology
| Memorial Sloan-Kettering Cancer Center
| Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact
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