Trait ontologies

[Katica Ilic]

Dear Simon,

Sorry for the late reply. At the present time, we have no plans for
developing Arabidospis trait ontology at TAIR. Instead, we proposed to use
combination of the existing ontologies, such as PATO (Phenotype,
ATtribute ontology), Gene Ontology, anatomy ontology and developmental
stages ontology to annotate Arabidopsis mutant phenotypes. Phenotype
description will appear in a free text format, based on the EAV model
(Entity - Attribute - Value), where terms for entity, attribute and value
come from respective ontologies (e.g., entity term comes from anatomy,
developmental stage, GO function, GO process or GO component while
attribute term comes from PATO).

Please let me know if you need more information on this topic. I can send
you more details on the EAV model and also style guidelines for the
Allele, Germplasm and Phenotype Curation that we use at TAIR.

I hope this helps.

Best regards,

Katica Ilic
TAIR curator

 On Wed, 11
Feb 2004, Simon Jupp wrote:

> Hi Pankaj,
>
> We are interested in describing some of our Arabidopsis mutant stocks in
> Trait ontology terms.  Could someone please let me know what is
> happening at the moment with regards to arabidopsis TO terms.
>
> We are very keen to use our current stock data to suggest new terms if
> needed.
>
> Thank you
> Simon Jupp
>
> Nottingham Arabidopsis Stock Centre
> Plant Science Division
> School of Biosciences
> University of Nottingham
> Sutton Bonington Campus
> Loughborough
> LE12 5RD
>
>

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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.
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