[Obo-cell-type] Annotations to cell types (using OBO-Cell)

[Pankaj Jaiswal]

Chris,

Do you want us to add the cell terms in PO as Xrefs.

xref_analog: CL:ID
e.g
xref_analog: CL:0000540


[Term]
id: PO:0000293
name: guard cell
namespace: plant_structure
def: "One of a pair of cells flanking the stomatal pore." [ISBN:0471245208]
comment: They cause the opening and closing of the pore by changes in 
turgor.
xref_analog: CL:0000292--->CHECK THIS FOR SUGGESTED ADDITION
is_a: PO:0004013 ! epidermal cell
relationship: develops_from PO:0000351 ! guard mother cell
relationship: part_of PO:0002000 ! stomatal complex

Is it good to have only the ID or do you want us to add the term name as 
well. Is there a better way?

Pankaj


Chris Mungall wrote:
> again, with attachment
> 
> On Jan 16, 2007, at 7:31 AM, Chris Mungall wrote:
> 
>>
>> Why not add links to CL from PO as xrefs? This will help keep the two
>> ontologies in sync, see
>> http://www.bioontology.org/wiki/index.php/CL:Aligning_species-
>> specific_anatomy_ontologies_with_CL
>>
>> See attached for a first pass at some automated mappings
>>
>> Hmm, according to OBO-Cell, zygote (CL:0000365) is both a plant and
>> animal cell!
>>
>> I think the PO<->CL coordination effort could do with revisiting...
>>
>> On Jan 15, 2007, at 3:58 PM, Sue Rhee wrote:
>>
>>> Chris,
>>>
>>> The Plant Ontology has a number of cell types under its Plant
>>> Structure branch and I think (though someone should confirm) that
>>> the Cell Type ontology's plant cell type terms have PO IDs as
>>> secondary IDs. Actually I think that this should be made
>>> bidirectional but am not sure if the PO terms have CT IDs as
>>> secondary IDs. In any case, there are 264 annotations to terms
>>> under plant cell, which are downloadable from the PO website
>>> (www.plantontology.org).
>>>
>>> Sue
>>>
>>> Chris Mungall wrote:
>>>> Is anyone aware of downloadable annotations to CL IDs? I know
>>>> that  MGI provide cell type localisation info as qualifiers to
>>>> their GO  annotations; this will be available through AmiGO
>>>> sometime this year.
>>>> There is also the FlyBase/ZFIN/NCBO phenotype annotations, many
>>>> of  which are described as qualities borne by types of cell (eg
>>>> spermatocyte lacks asters)
>>>> EVOC provides associations to dbEST libraries.
>>>> Any others?
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>>
>>
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-- 
Pankaj Jaiswal
G-15, Bradfield Hall
Dept. of Plant Breeding and Genetics
Cornell University
Ithaca, NY-14853, USA

Ph. +1-607-255-3103 / 4199
fax: +1-607-255-6683