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[bioontology-support] [BioPortal] Feedback from Wasila Dahdul

Dahdul, Wasila Wasila.Dahdul at usd.edu
Mon Aug 20 19:10:16 PDT 2012


Hi Trish,

Obsoleted terms in obo-format have a replaced_by line giving the identifier to the valid term. For example:

[Term]
id: TAO:0000020
name: extraembryonic structure
def: "Anatomical structure that is contiguous with the embryo and is comprised of portions of tissue or cells that will not contribute to the embryo." [ZFIN:curator]
xref: CARO:0000042
is_obsolete: true
replaced_by: CARO:0000042

On Aug 20, 2012, at 8:23 PM, Trish Whetzel wrote:

> Hi Wasila, 
> 
> To display the "replaced_by" term, is there a standard mechanism of representing this information using the OBO format?
> 
> Trish  
> 
> 
> On Aug 19, 2012, at 7:22 AM, support at bioontology.org wrote:
> 
>> 
>> Name: Wasila Dahdul
>> 
>> Email: wasila.dahdul at usd.edu
>> 
>> Location: http://bioportal.bioontology.org/ontologies/49080?p=terms&jump_to_nav=true&conceptid=TAO:0001591
>> 
>> Comment:
>> Would be very helpful to display obsolete terms with a better visual indication that they are obsolete (e.g., cross out or use red font for term name).  Also, display or link to the replaced_by term will better guide the user when searching in BioPortal.  
>> 
>> Thanks,
>> Wasila 
>> _______________________________________________
>> bioontology-support mailing list
>> bioontology-support at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/bioontology-support
> 



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