[BioC] obtain a list of possible oncogenes from the annotation packages?

[Paul Shannon]

Thanks, Steve.  This is very helpful.

 - Paul

On Nov 27, 2010, at 11:35 AM, Steve Lianoglou wrote:

> Hi Paul,
> 
> On Fri, Nov 26, 2010 at 7:51 PM, Paul Shannon
> <pshannon at systemsbiology.org> wrote:
>> Can anyone recommend a way to derive a list of oncogenes (even an inexact list) from the annotation packages, org.Hs.eg or something else?
> 
> This isn't exactly what you want, but there's a "Cancer Gene Census"
> list you can get from here:
> 
> http://www.sanger.ac.uk/genetics/CGP/Census/
> 
> They list genes (by symbol & entrez id) and things like the types of
> tumors they're found in, type of mutation, etc. There's no
> oncogene/tumor-suppressor column, though ...
> 
> Perhaps there are better sources, but there's one.
> 
> -steve
> 
> -- 
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>  | Memorial Sloan-Kettering Cancer Center
>  | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact