[BioC] problem with hgu133a // GOstats // BioC-R2.1.1

[John Zhang]

>X-Original-To: jzhang at jimmy.harvard.edu
>Delivered-To: jzhang at jimmy.harvard.edu
>Date: Tue, 02 Aug 2005 20:00:23 +0200
>From: Uri David Akavia <uridavid at netvision.net.il>
>Subject: Re: [BioC] problem with hgu133a // GOstats // BioC-R2.1.1
>To: John Zhang <jzhang at jimmy.harvard.edu>
>Cc: bioconductor at stat.math.ethz.ch
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>John Zhang wrote:
>> We rely on NCBI for annnotation. 213268_at is annotated to Z98884 by 
Affymetrix 
>> and UniGene says it is PER3.
>> 
>
>Why do you rely on Unigene, and not on Entrez Gene?
> From what I've seen, Unigene tends to unify different Gene settings, 
>even when the connection between them is unclear (to my examination of 
>the data).

We rely on NCBI as previously mentioned. Data from both Entrez Gene and UniGene 
were used to obtain unified annotations. e. g. Z98884 is annotated to PER3 by 
both Entrez Gene and UniGene and that is why that symbol is assigned to the 
probe.


>
>Yours,
>
>Uri David Akavia

Jianhua Zhang
Department of Medical Oncology
Dana-Farber Cancer Institute
44 Binney Street
Boston, MA 02115-6084