Re: [SO-devel] New term suggestion

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guys,
SO already contains the terms for organelle sequences in the attributes  
section.
The relationships between plastids, apicoplasts,  
chloroplasts,macronucleii etc are already there.
I was going to make a term chloroplast_chromosome the cross product  
between
isa chromosome
has_origin chloroplast_sequence

ditto for the other organelle chromosomes.

(We had a debate a long time ago with the GO people and we changed are  
organelle terms to organelle_sequence terms to avoid confusing them  
with GO)

--K
On Feb 22, 2006, at 9:46 AM, Lincoln Stein wrote:

> On Wednesday 22 February 2006 08:49, Michael Ashburner (Genetics)  
> wrote:
>> Fine, except that mitochondrion is NOT a plastid
>
> Right. What about this?
>
>  	organelle chromosome
>  		ISA plastid chromosome
>  			ISA chloroplast chromosome
>  		ISA mitochondrial chromosome
>
>
> Lincoln
>
>> On Tuesday 21 February 2006 08:36, Michael Ashburner (Genetics) wrote:
>>> David
>>>
>>> I think the term 'mitochondrial chromosome' could well be added
>>> and, for completion also 'chloroplast chromosome', as types of
>>> chromosome.
>>>
>>> Karen: What do you think ?
>>>
>>> Michael
>>>
>>>
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>>> <http://sourceforge.net/mailarchive/forum.php?forum=song-devel> Date:
>>> Tue, 21 Feb 2006 08:05:04 -0500
>>>
>>> Hi Michael,
>>>
>>>>>  genome has been suggested as a new term.
>>>>>  I am wary of this because a genome is for the most part
>>>>> discontinuous, and stitching it up to make a region of continuous
>>>>> sequence would be somewhat arbitrary.
>>>>>
>>>>>  Anyone else have an opinion?
>>>
>>> Just curious...  What about mitochondrial genomes?
>>> We're using "chromosome" in chado for the Dmel mitochondrial  
>>> genome...
>>>
>>> Best,
>>>
>>> -Dave
>>>
>>> On Tue, 21 Feb 2006 6:33, Michael Ashburner (Genetics) wrote:
>>>> I agree it has no place.
>>>>
>>>> M
>>>>
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>>>>>
>>>>>  genome has been suggested as a new term.
>>>>>  I am wary of this because a genome is for the most part
>>>>> discontinuous, and stitching it up to make a region of continuous
>>>>> sequence would be somewhat arbitrary.
>>>>>
>>>>>  Anyone else have an opinion?
>>>>>  --Karen
>>>>>
>>>>>  Initial Comment:
>>>>>  Suggestion: How about a term "genome" ?
>>>>>
>>>>>  It itself is used within other term names, their definitions, and
>>>>> even a
>>>>>  relationship (genome_of).   Primarily, I was simply hoping to  
>>>>> reason
>>>>>  that a
>>>>>  chromosome was part_of a genome, but presumably this term would be
>>>>>  wide-reaching (many possible "parts")...
>>>>>
>>>>>  Possible defs:
>>>>>  http://www.google.com/search?oi=defmore&defl=en&q=define:Genome
>>>>>
>>>>>
>>>>>
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> -- 
> Lincoln D. Stein
> Cold Spring Harbor Laboratory
> 1 Bungtown Road
> Cold Spring Harbor, NY 11724
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Karen Eilbeck
Research Assistant Professor
Department of Human Genetics
University of Utah
15 No. 2030 E.
SLC UT 84112