[BioC] Insert entrez gene ID and gene symbol and name on TopTable for hugene1.0st arrays

[James W. MacDonald]

Hi Marcos,

On 12/3/2010 8:32 AM, Marcos Pinho wrote:
> Dear List,
>
> could anybody help on how to insert columns in TopTable for entrez gene id,
> gene name and symbol when using the hugene1.0ST arrays.
>
> When using the regular 3'IVT arrays such as the hgu133plus2 I used the
> following lines without a problem
>
>> *ebayes$genes$Symbol=getSYMBOL(ebayes$genes$ID, "hgu133plus2")*
>
>
>
>> *ebayes$genes$EG<- getEG(ebayes$genes$ID, "hgu133plus2")*
>
>
>
>> *ebayes$genes$GeneName<- unlist(mget(fit$genes$ID, hgu133plus2GENENAME))*
>
>
> Unfortunately it is not working with my hugene1.0st files.
>
> Any suggestions?

It depends on how you are analyzing your hugene chips, but you will want 
to use either the hugene10sttranscriptcluster.db or 
hugene10stprobeset.db packages.

Best,

Jim
>
> Regards,
>
>
>
>
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-- 
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826
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