[BioC] Specific annotation information from ExpressionSet

[Sean Davis]

On Wed, May 21, 2008 at 7:47 AM, Daniel Brewer <daniel.brewer at icr.ac.uk> wrote:
> Hello,
>
> Is there any functions in bioconductor that can take an ExpressionSet,
> find the correct annotation object and then get information? So the
> function would use annotation() to get the object and then use that
> object for a specific purpose
>
> I have two uses for this:
> 1) Given a REFSEQ ID find the corresponding probes in an ExpressionSet
> and print the expression for those probes e.g.
> getExprFromREFSEQ(REFSEQID, ExpressionSet)
> 2) Given a probe and ExpressionSet find the gene symbol.
> getSymbol(ExpressionSet, ProbeID)
>
> If not, any ideas on the best way to do this?

There are not functions for this, I do not think.  However, you could,
in a pretty straightforward way, write a function to extract the
annotation slot (when it has something in it--it is not guaranteed to
be non-NULL), load the appropriate annotation package if it exists,
and then do the lookups you want.  Or is there some other detail that
I am missing from your post?

Sean