[go] concern about 'tricarboxylic acid cycle intermediate metabolic process' GO:0006100

[Tanya Berardini]

I'll have a look at the one annotation that TAIR has to this term.

Tanya

On 2/21/08, Valerie Wood <val at sanger.ac.uk> wrote:
>
>
>
> I'd be very happy to see it go. I was looking at this last week and
> wondering why lys2 was appearing under carbohydrate metabolism and that
> it came from this term, but i coun't work out what the actual problem was.
>
> I have deleted my annotation already so there are only 2 direct
> annotations remaining
>
> Val
>
>
>
> Midori Harris wrote:
>
> > Hi all,
> >
> > In SF 1894620, I corrected a true path violation for 'TCA cycle'
> > (GO:0006099) that Peter D'Eustachio noticed. That work also brought
> > 'tricarboxylic acid cycle intermediate metabolic process' (GO:0006100)
> > to our attention. It has the same parent -- 'cellular carbohydrate
> > metabolic process' (GO:0044262) -- that caused the TPV for TCA cycle,
> > but has no other parents. Peter and I reached the conclusion that
> > GO:0006100 serves merely as a  grouping term from "metabolism of
> > molecules that make an appearance in the TCA cycle", and that, while
> > not entirely nonsense, having 'cycle intermediates' process terms is a
> > really rich sources of tpv's.
> >
> > We therefore suggest that the safest course of action is to make
> > GO:0006100 obsolete. Annotations can be transferred to TCA cycle or to
> > one of the children of GO:0006100.
> >
> > Before I start the procedure to make GO:0006100 obsolete, can anyone
> > recall or think of any reasons to keep the term? If we do, I think it
> > would have to go directly under cellular metabolic process.
> >
> >
> https://sourceforge.net/tracker/index.php?func=detail&aid=1894620&group_id=36855&atid=440764
> >
> >
> > Midori
> >
> >
> >
>
>
>
>
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