[BioC] Gene symbol update.

[Marc Carlson]

Hi Jinyan,

It depends.  It depends on what you are using for annotations, and also 
which version of bioconductor/R you are using.  If you are using 
packages from the release last fall for example, then those things will 
have been updated back then.  We are currently in the middle of updating 
these things right now for the upcoming spring release.  And if you are 
using a web service like biomaRt, things may have already been updated 
very recently.  So it depends on what you are using for annotations...

Unless maybe you are actually asking about what to do with a list of old 
gene symbols that you simply want to modernize.  In that case, I think 
you want do do something like this:

library(org.Hs.eg.db)
select(org.Hs.eg.db, keys = c("CRSP6","KIAA0804"), cols="SYMBOL", 
keytype="ALIAS")

Hope this helps,


   Marc


On 03/14/2013 10:09 PM, Jinyan Huang wrote:
> Dear expert,
>
> Is there some bioconductor package to update Gene symbol ?
>
> e.g.
> CRSP6 update to MED17.
> http://www.ncbi.nlm.nih.gov.ezp-prod1.hul.harvard.edu/gene/9440
>
> KIAA0804 update to VPS8
> http://www.ncbi.nlm.nih.gov.ezp-prod1.hul.harvard.edu/gene/?term=KIAA0804
>
> --
> Best wishes,
>
> Jinyan HUANG
>
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