[BioC] annotation of hgu133a

[Weiwei Shi]

Hi, Sean:

I read the poster closely and felt they seemed to believe there were
some errors there (i apologize if I am wrong). I already sent an email
to ask for their annotation and am going to try both.

thanks for the linky and it helps.

Weiwei

On 4/17/07, Sean Davis <sdavis2 at mail.nih.gov> wrote:
> Weiwei Shi wrote:
> > Dear listers:
> >
> > I identified 22283 probesets from hgu133a and it was said in the
> > poster that over 6000 of them needs to be updated.
> >
> > What do you think of it? Should a new annotation package be built for
> > this?
> Hi, Weiwei.  I didn't look closely at the poster, but this has already
> been done.  See here:
>
> http://brainarray.mhri.med.umich.edu/Brainarray/Database/CustomCDF/cdfreadme.htm
>
> The answer to your question depends on what you mean by "updated".  The
> annotation is redone every 6 months (approximately) based on information
> supplied by Affymetrix.  If you choose to use annotation different from
> Affymetrix, it is probably a good idea to understand how the annotation
> (both from affy and the alternative) is produced in some detail so that
> you can weigh out the benefits of each.
>
> Sean
>


-- 
Weiwei Shi, Ph.D
Research Scientist
GeneGO, Inc.

"Did you always know?"
"No, I did not. But I believed..."
---Matrix III