[BioC] factdesign package

Denise Scholtens dscholte at hsph.harvard.edu
Tue May 4 18:05:46 CEST 2004



Hi Claire,

The 500 probes are a random sample of the 12625 probes available on the
U95av2 array.  No biological interpretability here - this was done purely
for size reasons so that the vignette would run a little faster.

Denise

On Tue, 4 May 2004, Claire Wilson wrote:

> Dear all,
>
> I have been working through the factdesign vignette and was wondering
> why only 500 genes are used. The data given are derived from Affymetrix
> HGU95av2 chips that have been normalised using RMA. I believe the U95av2
> chips measure the abundance of ~12,000 transcripts. Is the filtering of
> genes from 12,000 to 500 done purely for size reasons and if so how were
> these 500 selected? If not what criteria were used to select the 500
> genes?
>
> Many thanks
>
> Claire
>
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__________________________________________________________________________
Denise Scholtens
Department of Biostatistics
Harvard School of Public Health
Office: M1B11, DFCI
Phone: 617.632.4494
dscholte at hsph.harvard.edu



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