Re: Bioschemas Taxon profile specification

Hi,

I understood Franck's question in a different way.

Alasdair says
> I also agree that a context file should be provided which has the
> chosen types and terms in it, i.e. the context file would define
> Protein to be the URI http://purl.obolibrary.org/obo/PR_000000001.

I think what Franck is asking is how to choose 
http://purl.obolibrary.org/obo/PR_000000001 over other possible terms to 
define a Protein. For the taxon case, same as it happens with proteins, 
there are multiple possibilities. Franck, is this your question? If it 
is, I do not think there is any agreement on how to choose, other than 
going for well-known ontologies broadly accepted by the community of 
interest, even better if the term is mapped to other possible ones.

Regards,

On 2018-06-28 11:50, Gray, Alasdair J G wrote:
>> On 27 Jun 2018, at 19:19, Justin Clark-Casey <justinccdev@gmail.com>
>> wrote:
>> 
>> I think we should have mandatory known @types and properties.  In
>> my view, Bioschemas should be as easy as possible to write and
>> consume.  Multiple options will increase cognitive load on writers
>> (which one do I choose?  Why are these 2 examples using these
>> different terms?) and open the door to greater inconsistency.
>> Non-mandatory types will also raise the barriers for writing
>> Bioschemas software that will have to be aware of equivalent
>> mappings.
> 
>  I completely agree that we should have a single approved type for
> each profile, and likewise for each property a single chosen term.
> This is the whole point of having the profiles.
> 
>> I would go one step further and say that Bioschemas should provide
>> an http://bioschemas.org [1]context that will define types such as
>> Taxon, rather than blessing particular ontology terms.
> 
> I also agree that a context file should be provided which has the
> chosen types and terms in it, i.e. the context file would define
> Protein to be the URI http://purl.obolibrary.org/obo/PR_000000001. To
> be completely explicit, we would not be defining a type in the
> bioschemas namespace, e.g. http://bioschemas.org/Protein.
> 
>> This context can also document equivalent terms in different
>> ontologies.
> 
> I like the idea that this also contains mappings to the equivalent
> terms in other ontologies.
> 
> Alasdair
> 
>  Alasdair J G Gray
>  Fellow of the Higher Education Academy
> Assistant Professor in Computer Science,
> School of Mathematical and Computer Sciences
> (Athena SWAN Bronze Award)
> Heriot-Watt University, Edinburgh UK.
> 
> Email: A.J.G.Gray@hw.ac.uk
> Web: http://www.macs.hw.ac.uk/~ajg33
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Received on Thursday, 28 June 2018 14:18:53 UTC