[BioC] Query regarding for Entrez IDpackage

[Marc Carlson]

Hi Varpal,

These are exposed in the org.At.tair.db package but not in the chip
packages.  The chip packages (such as ag.db), will all load the
org.At.tair.db package though to get the data that they normally
expose.  So simply loading the appropriate chip package will make all
these things available to you.

Here is one  way that you could use to connect them that assumes you are
using the "ag" chip.


library(ag.db)
ids = c("11986_at","11987_at","11988_at","11989_at")

#get the probeset IDs that map to the relevant TAIR accessions.
accs = toTable(agACCNUM[ids] )
accs

#get the entrez gene IDs that map to the relevant TAIR accessions
egs = toTable(org.At.tairENTREZID[accs[,"gene_id"]] )
egs

#merge them together.
merge(accs, egs)


Let us know if you have more questions,


  Marc




 

On 05/06/2010 02:23 AM, varpal singh wrote:
> Dear Madam/Sir,
>
> Can you tell me, how can I get Entrez ID of arabidopsis for some particular
> probe id's of microarray by bioconductor ??
>
> Thanks
> varpal
>
> 	[[alternative HTML version deleted]]
>
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