DBXrefs

[Felipe Zapata]

If I'm not wrong I think I have used little letters
F
On Apr 16, 2004, at 11:47 AM, Pankaj Jaiswal wrote:

>
>
> Katica Ilic wrote:
>> Hi Pankaj,
>> I thought we agreed to use PO as the database name, so that every
>> definition 'created' by POC ontology developers would have PO as
>> database name. Term ID (which also has PO as prefix) would indicate  
>> where
>> the term came from (by the number range). Is there any reason for  
>> doing it
>> otherwise?
> Personally, I don't recall this conversation, though, there was a  
> discussion on how are we going to put the DBXrefs for the definition,  
> if they are coming from people in Monsanto for example. The reason was  
> Monsanto do not want anyone to know if this term is tracing back to  
> their ontologies.
>
> Therefore the agreement was that such cases where we do not want to  
> disclose the identity, the database name will be "Poc" not "PO"and the  
> database id will be "curators". In rest of the instances developers  
> will use their own initials and the respective database id. Atleast  
> this is also followed at GO. Every developer is not from GO for  
> instance.
>
> You may want to cross check, following DBXrefs are already using the  
> consistent style.
> definition_reference: Poc:curators
> definition_reference: TAIR:lr
> definition_reference: GR:pj
> definition_reference: MaizeDB:lv
>
>
>> By the way, I did not know about the lower case initials. I have it  
>> all in
>> capital letters (and I also told Leszek to follow the same). Any
>> particular reason for this? I ma just curious, of course we can  
>> always easily change
>> it, but it seems that most of us have used capital letters so far  
>> (though
>> I am not sure about Felipe).
> My suggestion was based on precedence and following it with a  
> consistent style. Infact it maintains the consistency when we are  
> pulling out DBXrefs from species specific ontologies.
>
> Pankaj
>
>
> PS: I forgot to add the generic POC DBXref. Here it is
>
> database name : Poc
> database id: curators
> description: The Plant Ontology Consortium
>
>
>> Katica
>> On Fri, 16 Apr 2004, Pankaj Jaiswal wrote:
>>>
>>> Hi Everyone,
>>>
>>> Here are the my suggestions for DBxrefs. Please use the consistent  
>>> style
>>> by configuring the DBXrefs in your DAG-Edit DBXref library. Try to  
>>> use
>>> lower case letters for your initials. Unless you have modified the
>>> definition available from another source do not add your id in  
>>> addition to
>>> the source DBXref. If the definition is completely given by the  
>>> developer
>>> based on his/her understanding, then the use of dveloper id DBXref is
>>> valid.
>>>
>>> I hope this will clear up some of the inconsistencies.
>>>
>>> Pankaj
>>>
>>>
>>> database name : TAIR
>>> database id: kl --->for Katica
>>> description: The Arabidopsis Information resource
>>>
>>> Similarly create ids for any other developer from TAIR
>>>
>>> database name : MaizeGDB
>>> database id: lv --->for Leszek
>>> description: maize Genetics and Genomics Database
>>>
>>> create ids for any other developer from MaizeGDB, e.g. mary (mp)
>>>
>>> database name : UMSL
>>> database id: fz --->for Felipe
>>> description: University of Missouri, St. Louis
>>>
>>> create ids for Toby (tk) and Peter (ps)
>>>
>>> database name : GR
>>> database id: pj --->for Pankaj
>>> description: Gramene Database
>>>
>>> database name : ISBN
>>> database id: 0080374913-->for Plant Anatomy by Fahn A
>>> description: International Standard Book Numbering
>>>
>>> similarly create any other ISBN ids for Essau's etc.
>>>
>>>
>>> database name : AP web Glosssary
>>> database id:  
>>> http://www.mobot.org/MOBOT/Research/APweb/top/glossarya_h.html
>>> description: Angiosperm Phylogeny Website
>>>
>>>
>>>
>>> database name : Web
>>> database id: URL --->for any other web resource
>>> description: Website
>>>
>>>
>>>
>> ---------------------------------------------------------------------- 
>> ----
>> Katica Ilic             		katica at acoma.stanford.edu
>> The Arabidopsis Information Resource 	Tel: (650) 325-1521 ext. 253
>> Carnegie Institution of Washington 	FAX: (650) 325-6857
>> Department of Plant Biology 		URL: http://arabidopsis.org/
>> 260 Panama St.
>> Stanford, CA 94305
>> U.S.A.
>> ---------------------------------------------------------------------- 
>> ----
>
> -- 
> ******************************
> Pankaj Jaiswal, PhD
> Gramene Database
> Department of Plant Breeding
> G-15 Bradfield Hall
> Cornell University
> Ithaca, NY-14853
>
> tel: +1-607-255-3103
> fax: +1-607-255-6683
> web: http://www.gramene.org
> *****************************
>
>
>
~~~~~~
Felipe Zapata
University of Missouri St. Louis
Department of Biology
8001 Natural Bridge Rd.
St. Louis, MO 63121
314 516-6200