[Electron-transport] one more addition

[Jennifer Deegan (nee Clark)]

Hi Michelle,

Yes that would be right. I'll just change them all back to is_a children 
and that will solve the problem until we start back on these terms after 
the commit.

Thanks,

Jen

Gwinn Giglio, Michelle wrote:

> 
> Hi Jen,
> 
> I guess we hadn't talked about all of the child terms yet - had we?  Maybe I
> wasn't at the meeting for that.
> 
> But, looking at the children - I agree with Jim that photosynthetic electron
> transport in photosystem I and also the photosystem II terms could be isa
> children of photosynthetic electron transport chain (at least the way they
> are currently defined.)
> 
> Regarding photoihibition - that sounds like some kind of regulatory process
> to me so could that have an isa child under a regulation term?
> 
> Finally, the remaining children that are undefined - am I mistaken or are
> they describing the transport in individual steps in the chain?  If so,
> shouldn't these just be covered with function terms?  and obsoleted from
> here?
> 
> Thanks,
> 
> Michelle
> 
> 
> 
> On 3/17/08 10:42 AM, "Jennifer Deegan (nee Clark)" <jdeegan at ebi.ac.uk>
> wrote:
> 
> 
>>Hi,
>>
>>Thank you for your comments. Clearly that was not the way to go, so I
>>will go back a few steps and explain the problem that I am trying to
>>solve, and maybe you will have better ideas.
>>
>>I need to find an is_a path to the root (by tomorrow lunchtime GMT) for
>>the following terms:
>>
>>photosynthetic electron transport in cytochrome b6/f ; GO:0009775
>>(undefined)
>>
>>photosynthetic electron transport in photosystem I ; GO:0009773
>>def: Electrons move from the primary electron acceptor (Quinone, X)
>>through a chain of electron transport molecules in the thylakoid
>>membrane until they reach ferredoxin which passes the electron to the
>>ultimate electron acceptor; NADP.
>>
>>photosynthetic electron transport in photosystem II ; GO:0009772
>>def: Electrons move from the primary electron acceptor (Quinone, Q)
>>through a chain of electron transport molecules in the thylakoid
>>membrane until they reach the ultimate electron acceptor of Photosystem
>>II, which is plastocyanin (PC). The electron is then passed to the P700
>>chlorophyll a molecules of the reaction centre of photosystem I.
>>
>>photosynthetic electron transport in plastocyanin ; GO:0009776
>>(undefined)
>>
>>photosynthetic electron transport in plastoquinone ; GO:0009774
>>(undefined)
>>
>>Does anybody have any good ideas for how I could do that? I just need to
>>make an is_a relationship from the terms up to another term that has a
>>direct is_a path up to the term 'biological_process'.
>>
>>I am working in the file go/scratch/electron_transport.obo
>>http://cvsweb.geneontology.org/cgi-bin/cvsweb.cgi/go/scratch/electron_transpor
>>t.obo
>>
>>Thanks,
>>
>>Jen
>>
>>

-- 
Jennifer Deegan (nee Clark)
EMBL-European Bioinformatics Institute
Gene Ontology Consortium