[BioC] Have troubles with finding Annotations for Bovine and Rhesus\' platforms

[James W. MacDonald]

Hi Kaj,

On 2/14/2013 11:48 AM, Kaj Chokeshaiusaha [guest] wrote:
> Dear whom it may concern,
>
> I'm working with the platforms as following:
> 1. Agilent-015354 Bovine Oligo Microarray (4x44K)

I don't think there is a .db package for this one. You could go to 
earray (https://earray.chem.agilent.com/earray/) and find the correct 
GeneList, and then use AnnotationForge to create one. It could be fun, 
and help you break out of that 'pure biologist' rut you appear to be in ;-D

> 2. Affymetrix GeneChip Rhesus Macaque Genome Array [Rhesus]

biocLite("rhesus.db")

> 3. Affymetrix GeneChip Mouse Gene 1.0 ST Array

biocLite("mogene10sttranscriptcluster.db")

assuming that you have summarized at the transcript level (and IMO you 
should).

Best,

Jim


>
> Since I'm quite pure biologist, I do have no idea how to find appropriate annotations (.db) for these platforms. I need to use them for virtaulArray.
>
> Would you please help me?
>
> Best Regards,
> Kaj
>
>   -- output of sessionInfo():
>
> sessioninfo()
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
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Seattle WA 98105-6099