[BioC] metadata - annotation package changes

[Maria Stalteri]

Hi John,
If you were involved with building the previous releases you can probably 
tell me where the 
accession numbers for the previous releases (1.5,1.6,1.7)
came from.
Do you actually get them from the Affymetrix annotation files, 
and if so, which section? For some probe sets different sections
of the Affymetrix files give different accession numbers.

Many thanks,
Maria.


On Tue, 9 Aug 2005, John Zhang wrote:

> Date: Tue, 9 Aug 2005 08:19:01 -0400 (EDT)
> From: John Zhang <jzhang at jimmy.harvard.edu>
> To: bioconductor at stat.math.ethz.ch, m.stalteri at mail.cryst.bbk.ac.uk
> Subject: Re: [BioC] metadata - annotation package changes
> 
> Although I was involved in building 1.8, Seth is probably the best one to answer 
> this question. My understanding is that, correct me Seth if I am wrong, a set of 
> fresh base files (probe id to GeneBank accession number mappings extracted from 
> Affymetrix) were used to build the new version of annotation packages.
> 
> 
> 
> >X-Original-To: jzhang at jimmy.harvard.edu
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> >Date: Tue, 9 Aug 2005 10:22:47 +0100 (BST)
> >From: Maria Stalteri <m.stalteri at mail.cryst.bbk.ac.uk>
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> >Hi,
> >I guess my question is mainly directed to John Zhang and
> >the other authors/maintainers of the annotation packages
> >for Affymetrix chips.
> >
> >In the latest versions (1.8) of the moe430a and rae230a
> >packages, the probe set ID-to-accession number mappings
> >(ACCNUM) are different from those given in previous
> >versions (1.5, 1.6, 1.7).
> >
> >Can someone please explain to me why there has been 
> >a change?
> >
> >Regards,
> >Maria.
> >
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> 
> Jianhua Zhang
> Department of Medical Oncology
> Dana-Farber Cancer Institute
> 44 Binney Street
> Boston, MA 02115-6084
>