[go] representation of -> in go term names

[Midori Harris]

Hi Jim,

I can't comment on the techy aspects of your questions, such as which 
representations of arrows are compatible with which software, but I do 
think GO term names should choose one and use it consistently. I also
think we'll probably need to keep synonyms that use some of the alternate 
representations.

Chris - can you run a check for consistency for this?

midori

On Wed, 20 Feb 2008, Jim Hu wrote:

> There are some go terms that use -> to represent a right arrow.  On GONUTS we 
> have
>
> http://gowiki.tamu.edu/wiki/index.php/Category:GO:0033942_%21_4-alpha-D-%28%281-4%29-alpha-D-glucano%29trehalose_trehalohydrolase_activity
>
> the same term on AMIGO:
>
> http://amigo.geneontology.org/cgi-bin/amigo/go.cgi?view=details&show_associations=direct&search_constraint=terms&depth=0&query=GO:0033942
>
> For wiki compatibility, we convert curly brackets to parentheses.  I 
> converted the -> to a -, but I'm not sure whether that is appropriate.
>
> Mike Cherry and I discussed this a tiny bit off list.  Mike wrote (off-topic 
> discussion of iPhones redacted):
>> 4-alpha-D-((1->4)-alpha-D-glucano)trehalose trehalohydrolase
>> 
>> I find the -> at several places, although some use 1,4 instead of 1->4. 
>> Also GO has the { escaped by not the }.  It seems that no one is removing 
>> the \, this include MGI and QuickGO web sites.
>> 
>> I think this is a good thing to bring up to the GO list.  There are lots of 
>> synonyms that have '->'.
>
> I'm not sure whether 1,4 and 1->4 mean the same thing.  The -> causes 
> problems for mediawiki when it's in a page title, as we use term names as 
> pages on GONUTS.  It seems to work ok in AMIGO.  Is this a good standard way 
> to represent right arrows?  Will the '>' cause problems for othe software 
> besides mediawiki?
>
> Jim
>
> =====================================
> Jim Hu
> Associate Professor
> Dept. of Biochemistry and Biophysics
> 2128 TAMU
> Texas A&M Univ.
> College Station, TX 77843-2128
> 979-862-4054
>
>