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Re: nanopublications are they ok with RDF graphs?

From: Paul Groth <p.t.groth@vu.nl>
Date: Thu, 24 Oct 2013 09:21:03 +1100
Message-ID: <CAJCyKRqEOcRA+RtdnWR01H6Qd1cQvbWC=UxPVkN_94u6-+sf9Q@mail.gmail.com>
To: Gavin Carothers <gavin@carothers.name>
CC: "public-rdf-comments@w3.org" <public-rdf-comments@w3.org>
Gavin,

This answers my question - and I'm fine with the resolution. Essentially,
it won't break are current set-up and we will have to define our own
interpretation of graphs for people using nanopublications.

Thanks
Paul




On Sat, Oct 19, 2013 at 1:15 AM, Gavin Carothers <gavin@carothers.name>wrote:

>
>
>
> On Sun, Sep 22, 2013 at 11:53 AM, Paul Groth <p.t.groth@vu.nl> wrote:
>
>> Hi All,
>>
>>  I was reviewing the Trig spec. We use trig to express nanopublications
>> - light weight forms of provenance attached to graphs. Each nanopublication
>> has three graphs associated with it:
>>
>>  - an assertion graph
>> - a publication info graph
>> - a provenance graph
>>
>>  The provenance graph points to the the assertion graph.
>>
>>  GRAPH :assert { ... }
>> GRAPH :provenance { :assert prov:wasDerivedFrom :xyz . }
>>
>
>>  Is this ok with what's coming out?
>>
>
>  Paul,
>
>  In terms of TriG and other concrete syntaxes for datasets (JSON-LD,
> N-Quads) the above
> dataset can be safely represented. Using the same PName (or URI or Blank
> Node label) in
> a graph statement, and as a graph label works perfectly. However, the
> interpretation of
> `:assert` in the graph labeled `:provenance` referring to the graph
> `:assert` is application
> specific logic. From RDF 1.1 Semantics:
>
>  "When a graph name is used inside RDF triples in a dataset it may or may
> not refer to the
> graph it names. The semantics does not require, nor should RDF engines
> presume,
> without some external reason to do so, that graph names used in RDF
> triples refer
> to the graph they name."
>
> In your case applications dealing with nanopublications would simply need
> to be written with the understanding that graph names (IRIs, BNodes)
> used in graph in statements should refer to that graph in the dataset.
>
>  Could you please respond to public-rdf-comments@w3.org as to whether
> this response
> resolves your question.
>
> Yours sincerely,
>  Gavin Carothers
>
>
>>  I ask because we have a ton of post translational modifications and
>> protein isoforms modeled like this [1]/
>>
>>  Thanks!
>> Paul
>>
>>  [1] http://www.semantic-web-journal.net/system/files/swj461.pdf
>>
>>
>>  --
>>
>> -----------------------------------------------------------------------------------
>> Dr. Paul Groth (p.t.groth@vu.nl)
>> http://www.few.vu.nl/~pgroth/
>> Assistant Professor
>> - Web & Media Group | Department of Computer Science
>> - The Network Institute
>> VU University Amsterdam
>>
>
>


-- 
-----------------------------------------------------------------------------------
Dr. Paul Groth (p.t.groth@vu.nl)
http://www.few.vu.nl/~pgroth/
Assistant Professor
- Web & Media Group | Department of Computer Science
- The Network Institute
VU University Amsterdam
Received on Wednesday, 23 October 2013 22:21:31 UTC

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