[BioC] GOstats with Reactome database?

[Marc Carlson]

Hi Robin,

I am glad to hear that!  We are definitely interested in getting 
reactome better exposure through Bioconductor.  We may contact you to 
help facilitate this in the near future.

   Marc


On 08/15/2011 02:37 PM, Robin Haw wrote:
> Dear Martin and Jose,
>
> We, at Reactome, would be encouraged by the development of Gostats to use
> our pathway data. If you would like to discuss this further, please let me
> know.
>
> Likewise, if there are any other BioConductor developers interested in
> using Reactome as a source of pathway data, drop me an email. In the
> meantime, we do provide a "Reactome Pathway Gene Set" and other annotation
> data at http://www.reactome.org/download/.
>
> Regards,
> Robin
>
> Robin Haw, PhD
> Scientific Associate and Outreach Coordinator (Reactome)
>
> Ontario Institute for Cancer Research
> MaRS Centre, South Tower
> 101 College Street, Suite 800
> Toronto, Ontario, Canada M5G 0A3
>
> Tel:         647-260-7985
> Toll-free: 1-866-678-6427
> http://www.oicr.on.ca
> http://www.reactome.org
>
> This message and any attachments may contain confidential and/or
> privileged information for the sole use of the intended recipient. Any
> review or distribution by anyone other than the person for whom it was
> originally intended is strictly prohibited. If you have received this
> message in error, please contact the sender and delete all copies.
> Opinions, conclusions or other information contained in this message may
> not be that of the organization.
>
>
>
>
> On 11-08-15 1:21 PM, "J.delasHeras at ed.ac.uk"<J.delasHeras at ed.ac.uk>  wrote:
>
>> Quoting Martin Morgan<mtmorgan at fhcrc.org>  on Mon, 15 Aug 2011 10:11:50
>> -0700:
>>
>>> On 08/15/2011 05:48 AM, J.delasHeras at ed.ac.uk wrote:
>>>> Dear all,
>>>>
>>>> with the demise of KEGG (well, at least without subscription), I was
>>>> wondering whether there are any plans to get GOstats working with the
>>>> Reactome database, or whether there is an "easy" way to persuade
>>>> GOstats
>>>> to work with it.
>>> Hi Jose --
>>>
>>> Yes, we intend to revise the GOstats, GSEABase, and perhaps other
>>> packages to work more flexibly with Reactome&  other data base
>>> packages. Whether this will be accomplished this release is not clear.
>>>
>>> Martin
>>>
>>>> Any ideas?
>>>>
>>>> Jose
>>
>> Hi Martin,
>>
>> that's great news. I have become a bit of a fan of GOstats recently
>> and would love to use a similar approach with other databases.
>>
>> Very grateful for all your work.
>>
>> Jose
>>
>> -- 
>> Dr. Jose I. de las Heras                      Email: J.delasHeras at ed.ac.uk
>> The Wellcome Trust Centre for Cell Biology    Phone: +44 (0)131 6507090
>> Institute for Cell&  Molecular Biology        Fax:   +44 (0)131 6507360
>> Swann Building, Mayfield Road
>> University of Edinburgh
>> Edinburgh EH9 3JR
>> UK
>>
>>
>> -- 
>> The University of Edinburgh is a charitable body, registered in
>> Scotland, with registration number SC005336.
>>
>> _______________________________________________
>> Bioconductor mailing list
>> Bioconductor at r-project.org
>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>> Search the archives:
>> http://news.gmane.org/gmane.science.biology.informatics.conductor
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor