[Ontology-editors] DASH complex - two part_of parents

[Valerie Wood]

I'm still not sure about this.

The DASH complex is usually considered part of the kinetochore. It 
associated with spindle microtubules, when they attach to the kinetochore..
I'm not sure it is correct to position under 'spindle microtubule' as 
this would imply it was a constituent of the microtubule.
According to the ref genome discussion recently microtubule should only 
be used to annotatate tubulins, and other things which assoicate with 
the microtubule should be annotated with microtubule binding, or the 
appropriate microtubule cytoskeleton component term.

In this case I don't think  the DASH complex would be considered as part 
of the microtubule, or  microtubule cytoskeleton?

I'm also not sure that the 2 children microtubule associated DASH 
complex and kinetochore associated DASH complex are required?
As far as I'm aware DASH complex is always associated with the 
kinetochore when it exists. When the spindles attach it is also 
associated with the microtubules. Is there a precedent for having 
separate componet terms in this situation when we are referring to an 
identical complex ? (It seems  the terms are being used to describe 
temproal aspects of the complexes interactions)

VAl

Midori Harris wrote:

> Hi,
>
> This is just to record that Val and I have looked at the literature on 
> the DASH complex (GO:0042729), and agreed that it's OK for it to have 
> two part_of parents for now.
>
> Background: the DASH complex term was originally added with two 
> part_of parents, GO:0000778 condensed nuclear chromosome kinetochore 
> and GO:0005828 kinetochore microtubule. It was duly flagged by Chris' 
> QC report, and at a meeting involving Jane, David and me, Jane created 
> two
> child terms to avoid true path violations. After that work we had:
>
>   DASH complex GO:0042729
>   [i] kinetochore-associated DASH complex GO:0043926
>   [i] microtubule-associated DASH complex GO:0043925
>
>   condensed nuclear chromosome kinetochore
>   [p] kinetochore-associated DASH complex GO:0043926
>
>   kinetochore microtubule
>   [p] microtubule-associated DASH complex GO:0043925
>
> But Val and I confirmed that, as far as is known in the field, every 
> DASH complex that forms is part of a kinetochore and associated with 
> kinetochore microtubules. I think using a different relationship type, 
> perhaps associated_with or connected_to or adjacent_to, between DASH 
> complex and kinetochore microtubule would improve our representation 
> of the biology, but until we add new relationship types, allowing the 
> original DASH complex term to have two part_of parents is the most 
> biologically accurate thing we can do.
>
> Accordingly, I've merged the newer terms into the parent, restoring 
> the part_of relationships (and removing the newer term names from the 
> synonym list -- looks like nobody uses them).
>
> midori
>
>
>



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