Re: [Treebase-devel] [Nexml-discuss] iEvoBio registration is open. Data integration challenge!

[Arlin S. <ar...@um...>]

start with user-input gene (protein) tree, get taxids for species  
sources of genes, use species list to extract species tree from ToL,  
run a reconcile-tree algorithm, display the reconcile-tree with  
duplications, add GO annotations and colorize them to reveal  
functional shifts in paralogous subfamilies.

if the starting tree is from treebase, the first two steps are done  
already (in many cases).

but  that's a heavy load.

arlin

On Jan 20, 2011, at 3:56 PM, Rutger Vos wrote:

> Mmmm... yeah, I guess it would make more sense for the message to come
> out of @ievobio rather than being picked up by someone in the
> twittersphere stumbling across the registration page. That said, it
> would be interesting to think about how some projects near and dear to
> our hearts might be parts in a data integration challenge. For
> example: traverse the ToL (with a new visualizer, e.g. jsPhyloSVG)
> that can attach clickable PhyloWS query URLs to nodes in the ToL which
> lead you to any trees in TreeBASE for that (higher or terminal) taxon.
>
> On Thu, Jan 20, 2011 at 1:40 PM, Hilmar Lapp <hl...@ne...>  
> wrote:
>> Registration isn't quite open yet - we depend on Evolution for  
>> that, which
>> needs a few days more. We won't be silent about it either when that  
>> happens
>> :-)
>>
>>        -hilmar
>>
>> On Jan 20, 2011, at 3:56 AM, Rutger Vos wrote:
>>
>>> http://ievobio.org/challenge.html
>>>
>>> --
>>> Dr. Rutger A. Vos
>>> School of Biological Sciences
>>> Philip Lyle Building, Level 4
>>> University of Reading
>>> Reading
>>> RG6 6BX
>>> United Kingdom
>>> Tel: +44 (0) 118 378 7535
>>> http://www.nexml.org
>>> http://rutgervos.blogspot.com
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> Protect Your Site and Customers from Malware Attacks
>>> Learn about various malware tactics and how to avoid them.  
>>> Understand
>>> malware threats, the impact they can have on your business, and  
>>> how you
>>> can protect your company and customers by using code signing.
>>> http://p.sf.net/sfu/oracle-sfdevnl
>>> _______________________________________________
>>> Treebase-devel mailing list
>>> Tre...@li...
>>> https://lists.sourceforge.net/lists/listinfo/treebase-devel
>>
>> --
>> ===========================================================
>> : Hilmar Lapp  -:- Durham, NC -:- informatics.nescent.org :
>> ===========================================================
>>
>>
>>
>>
>
>
>
> -- 
> Dr. Rutger A. Vos
> School of Biological Sciences
> Philip Lyle Building, Level 4
> University of Reading
> Reading
> RG6 6BX
> United Kingdom
> Tel: +44 (0) 118 378 7535
> http://www.nexml.org
> http://rutgervos.blogspot.com
>
> ------------------------------------------------------------------------------
> Protect Your Site and Customers from Malware Attacks
> Learn about various malware tactics and how to avoid them. Understand
> malware threats, the impact they can have on your business, and how  
> you
> can protect your company and customers by using code signing.
> http://p.sf.net/sfu/oracle-sfdevnl
> _______________________________________________
> Nexml-discuss mailing list
> Nex...@li...
> https://lists.sourceforge.net/lists/listinfo/nexml-discuss

-------
Arlin Stoltzfus (ar...@um...)
Fellow, IBBR; Adj. Assoc. Prof., UMCP; Research Biologist, NIST
IBBR, 9600 Gudelsky Drive, Rockville, MD
tel: 240 314 6208; web: www.molevol.org