Re: [base] MO terms (annotations) for experiments

[Bob M. <r.m...@im...>]

On Tue, Oct 25, 2011 at 12:16 PM, Nicklas Nordborg <ni...@th...> wrote:
> On 2011-10-25 09:22, Pawel Sztromwasser wrote:
>> Hi
>>
>> Working with the MageTab export I have noticed that it would be great to
>> have additional properties for experiments that could hold MGED Ontology
>> annotations, e.g. Experiment Design, Replicate Type, Quality Control
>> Type. Up to now we've been using the Experiment Design and Experiment
>> Type fields of experiments to hold this information, but it is a bit
>> counterintuitive and does not restrict to available MO terms.
>>
>> In order to attach a fixed vocabulary term to an experiment it is
>> probably easiest to make experiments annotatable and create one
>> annotation type with selection of terms for every property. Further, the
>> MO annotation types could be present in BASE by default (like the
>> default protocol types), together with selections of MO terms. What do
>> you think?
>
> I have also noticed that many of the experiment properties are
> annotation-like and that it would be better to simply use annotations
> instead. Unfortunately, it's too late to include this in the BASE 3
> release, so I guess it will have to wait for BASE 3.1. Making the
> experiment annotable is fairly easy. The existing information must stay
> as it is.

+1 for annotatable experiments

> Regarding default annotation types, I think it is best to not include
> any in a standard installation. Ontologies tend to change every now and
> then, so it's better to let administrators handle that.
>
> /Nicklas
>
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