[BioC] Human Gene ST 1.0 probeset controls

[Hooiveld, Guido]

... In addition to my previous mail, I just noticed there are 21 so-called 'control -> affx' probesets (column R in affy;s annotation file), but these probesets don't have any annotation other than this. Netaffx is also not more informative. Maybe these code for the hyb/spike in controls, but obviously I am not sure at all about this.

G

 

> -----Original Message-----
> From: bioconductor-bounces at stat.math.ethz.ch 
> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of 
> Hooiveld, Guido
> Sent: 04 November 2009 21:55
> To: Javier Pérez Florido; bioconductor at stat.math.ethz.ch
> Subject: Re: [BioC] Human Gene ST 1.0 probeset controls
> 
> Hi Javier,
> 
> In our facility we do add the hybridization and spike-in 
> controls to the samples when arraying them on mouse gene st 
> arrays (as recommended by affy), but I noticed that these are 
> indeed not listed in the annotation files...??
> Something for affymetrix to answer?
> 
> Regards,
> Guido
> 
> ------------------------------------------------
> Guido Hooiveld, PhD
> Nutrition, Metabolism & Genomics Group
> Division of Human Nutrition
> Wageningen University
> Biotechnion, Bomenweg 2
> NL-6703 HD Wageningen
> the Netherlands
> tel: (+)31 317 485788
> fax: (+)31 317 483342 
> internet:   http://nutrigene.4t.com
> email:      guido.hooiveld at wur.nl
> 
> 
> 
> > -----Original Message-----
> > From: bioconductor-bounces at stat.math.ethz.ch
> > [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Javier 
> > Pérez Florido
> > Sent: 04 November 2009 20:30
> > To: bioconductor at stat.math.ethz.ch
> > Subject: [BioC] Human Gene ST 1.0 probeset controls
> > 
> > Dear list,
> > I would like to know if the GeneChip Human Gene ST 1.0 
> array has some 
> > gene controls (like AFFX genes in other Affymetrix technologies).
> > Thanks in advance,
> > Javier
> > 
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