User's request - new term in PATO (fwd) (PR#48)

[Katica Ilic]

Paulien,

Thank you for clarifying this to Richard. BTW, do you know if
anyone from PlaNet is coming to the PAG XIII in January? I haven't
heard from them yet.

Also, would you continue collaboration on the POC now that you took the
new
position? I see you are using EAV, so you shouldn't be far from PO, right?
:-)

Katica

On Fri, 3 Dec 2004, Adamse, Paulien wrote:

> As one of the partners of PlaNet they are "official" collaborators already, in fact Beatrice Schildknecht, from Nottingham, also attended the POC meeting in San Diego las year. So did I, unfortunately I will not be able to come this year.
>
> I started using EAV in www.watdb.nl and will have that visible there in a few weeks. Also used PATO, but have a hard time using the tree structure of it.
>
> Dr Paulien Adamse
> BU Bioscience
> Plant Research International,
> P.O. Box 16,
> 6700 AA Wageningen,
> The Netherlands.
>
> Tel: +31 317 477001/476850
> FAX: +31 317 418094
> paulien.adamse at wur.nl
> www.plant.wageningen-ur.nl
>
>
> -----Original Message-----
> From: Bruskiewich, Richard (IRRI) [mailto:r.bruskiewich at cgiar.org]
> Sent: vrijdag 3 december 2004 08:14
> To: 'Katica Ilic'; simon at arabidopsis.info
> Subject: RE: User's request - new term in PATO (fwd) (PR#48)
>
> How about inviting Nottingham to join the POC as a full (international) partner, Katica, so that they can freely debate whether or not a term belongs in PO or not, based on their own expertise...
>
> Richard :-))?
>
> -----Original Message-----
> From: Katica Ilic [mailto:jitterbug at plantontology.org]
> Sent: Friday, 2004 December 03 7:05 AM
> To: simon at arabidopsis.info
> Cc: po-dev at plantontology.org
> Subject: Re: User's request - new term in PATO (fwd) (PR#48)
>
> Hi Simon,
>
> I am really not aware of any term submission procedure for the PATO. As for the current state of the Phenotype Attribute Ontology, you should contact Dr.
> Michael Ashburner (ma11 at gen.cam.ac.uk), since his group created this ontology and is currently maintaining it. You can also e-mail the OBO phenotype group (obo-phenotype at lists.sourceforge.net).
>
> If you have new terms to suggest for the Plant Ontology, please send us the list of terms. We will consider thoroughly each term and will get back to you with the list of introduced terms and explanation in case a term may not belong to the Plant Structure Ontology, but rather to other Biological Ontologies (for instance, Gene Ontology).
>
> I would be very interested to learn more about the ontology browser you are working on.
>
> I look forward to hearing from you.
>
> Best regards,
>
> Katica
> >
> > ---------- Forwarded message ----------
> > Date: Thu, 02 Dec 2004 10:37:57 +0000
> > From: Simon Jupp <simon at arabidopsis.info>
> > Reply-To: po-dev at plantontology.org, Simon Jupp
> > <simon at arabidopsis.info>
> > To: po-dev at plantontology.org
> > Subject: [Fwd: Need info...]
> >
> >
> > {This message has already been sent out on the obo-phenotypes list,
> > but thought it may also be relavent here as I have some terms that may
> > need including in PO.}
> >
> > Hi,
> >
> > I am writing from the Nottingham Arabidopsis Stock Center (NASC) , we
> > are currently curating over 5000 phenotype descriptions using a
> > combination of Plant ontology and PATO.  We are using an EAV model to
> > describe the various phenotypes and are finding that some of the value
> > terms we ant to use are missing from PATO, we already have a list of
> > at least 20 new terms that we would like including.  Is there a term
> > submission procedure, what is the current state of PATO?
> >
> > I am also working with the current GO tools and AMIGO to build an
> > ontology browser and search method that combines PO and PATO.  Is
> > anyone else doing similar work and interested in collaboration?
> >
> > Cheers,
> > Simon Jupp
> >
> > NASC,
> > Nottingham,
> > UK
> >
> > This message has been scanned but we cannot guarantee that it and any
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> > University of Nottingham may be monitored as permitted by UK legislation.
> >
> >
> >
> >
> >
> Katica Ilic, TAIR Curator,	     E-mail: 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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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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