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Hello Camille,

On Fri, Mar 26, 2010 at 1:04 PM, Camille Laibe <laibe@ebi.ac.uk> wrote:
>>    Perhaps we could adopt a new MIRIAM type biomodels.element to build
>> new URNs of the form:
>>
>>       urn:miriam:biomodels.element:myOldModel.met2
>
> Does that mean that we would have a specific URN scheme only for the
> data type "BioModels Datatabase" in MIRIAM Resources?

It is not a new URN scheme. Only a new MIRIAM type called
"biomodels.elements". There already are other types that contain dots
such as "obo.go".

> If the answer is "no", this proposal (as well as your "xpath" one) is
> possibly not usable, as some identifiers may use "." and therefore one
> could not know when the "element" part starts.

I agree, you could only use it for types where the values don't use
a dot ('.'). For others, a different separator would have to be used.
Perhaps a slash '/' or sharp '#'.

>>    Alternatively, we could adopt a datatype biomodels.species. We could
>> also extend this into a larger framework of contained types, say, for
>> every MIRIAM type XXX referring to models, XXX.element refers to
>> elements of these models (or XXX.species to a species in that model).
>
> Let's not forget that MIRIAM URIs/URNs/identifiers (whatever people like
> to call them) are not limited to identify models, and when they do
> identify some, these are not necessary SBML ones (where "species" has a
> meaning).

Yes, we would apply this to types that are SBML models (such as the
type "biomodels").

Take care
Oliver

--
Oliver Ruebenacker, Computational Cell Biologist
Systems Biology Linker at Virtual Cell (http://vcell.org/sybil)
Turning Knowledge Data into Models
Center for Cell Analysis and Modeling
http://www.oliver.curiousworld.org
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