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Re: HCLS IG Note on mapping and publishing life sciences RDF

From: Carlo Torniai <carlotorniai@gmail.com>
Date: Tue, 13 Mar 2012 21:35:55 -0700
Message-ID: <CAEDyDdJ5Maob=fSZ4mWcHgM+cVMXWNJBCiRSfRosim=XOorsTA@mail.gmail.com>
To: "M. Scott Marshall" <mscottmarshall@gmail.com>
Cc: HCLS <public-semweb-lifesci@w3.org>, biohackathon@googlegroups.com, linkedlifedatapracticesnote@googlegroups.com, public-lod@w3.org
I read the document and i really enjoyed.
Nice work.

One comment:
Under  Q4. How should the RDF representation be mapped to global ontologies
or reference terminologies?

In relation to  MIREOT:  it may be worth to mention Ontofox (
http://ontofox.hegroup.org/) as a reference implementation of the MIREOT
principle working with a large set of ontologies commonly used in HCLS.

Cheers,
Carlo


On Tue, Mar 13, 2012 at 1:16 PM, M. Scott Marshall <mscottmarshall@gmail.com
> wrote:

> Here is another request for comments before we move the HCLS IG
> Interest Group note below into html (still fluid but more viscous). I
> am requesting comments from the LOD mailing list now as well, where
> there have been several related discussions.
>
> In the draft document below, we attempt to supply a guide for those
> who would like to produce and publish data in RDF based on the
> experiences of several of the LODD members. We would like you to lend
> us your extensive expertise and would very much appreciate and
> carefully consider your candid comments, questions or suggestions to
> improve the note. Keep in mind that it is not 'all encompassing' but
> meant to provide a good starting point.
>
> IG Note (Draft) HCLS IG Note on mapping and publishing life sciences RDF
> [1]
> https://docs.google.com/document/d/1XzdsjCfPylcyOoNtDfAgz15HwRdCD-0e0ixh21_U0y0/edit?hl=en_US
>
> The note above is based on a number of use cases described in an
> article accepted to the Journal of Web Semantics. With the publisher's
> permission, we have created a more 'W3C Note'-like version of the same
> material and edited sections based on a wide range of comments. The
> original use cases have been removed. If you are interested, I will
> send you a pre-print.
>
> We have attempted to frame the discussion in terms of applications
> that make use of SPARQL queries (minimally), but also with (OWL)
> reasoning and resolvable URIs - three separate yet interdependent sets
> of concerns that seem to strongly influence opinions about appropriate
> design in the community.
>
> Note that we also suggest that metadata be made available in
> statements about the graph URI *in the graph itself*, in addition to a
> location specified in SPARQL-SD, and in the RDF returned by the graph
> URI.
>
> Cheers,
> Scott
>
> ---------- Forwarded message ----------
> From: M. Scott Marshall <mscottmarshall@gmail.com>
> Date: Fri, Dec 16, 2011 at 4:13 PM
> Subject: HCLS IG Note on mapping and publishing life sciences RDF
> To: HCLS <public-semweb-lifesci@w3.org>,
> linkedlifedatapracticesnote@googlegroups.com,
> biohackathon@googlegroups.com
>
>
> Dear Colleagues,
>
> With data sharing becoming more widely known and accepted, the need
> for the means to accomplish data sharing *in practice* is an important
> technical challenge. The Linked Open Drug Data task force in HCLS has
> attempted to address this need by developing a DRAFT IG Note regarding
> practices for mapping and linking life science data using RDF.  The
> document, largely based on a recently submitted article, is being
> staged as a Google Doc for your review and comment[1].
>
> In the draft document above, we attempt to supply a guide for those
> who would like to produce and publish data in RDF. We would like you
> to lend us your extensive expertise and would very much appreciate and
> carefully consider your candid comments, questions or suggestions to
> improve the note.
>
> Ideally, someone with basic knowledge of the Semantic Web stack and
> the desire to 'publish' linked data will be able to get started from
> this online document. We have removed the use case descriptions to
> make it more 'W3C note-like' (concise). The use case descriptions will
> be available in an article (in review) that covers much of the same
> material (pre-prints available on request).
>
> Kind regards,
>
> M. Scott Marshall
> LODD Chair,  on behalf of the LODD Editors and Contributors
>
> IG Note (Draft)
> [1]
> https://docs.google.com/document/d/1XzdsjCfPylcyOoNtDfAgz15HwRdCD-0e0ixh21_U0y0/edit?hl=en_US
>
> P.S. Lee Harland just alerted me to a relevant resource that we will
> probably cite or otherwise integrate into the above note:
> Looks very interesting:
> Interactively Mapping Data Sources into the Semantic Web (presented at
> ISWC)
> http://ceur-ws.org/Vol-783/paper2.pdf
>
>


-- 
Carlo
Received on Wednesday, 14 March 2012 04:36:24 GMT

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