Re: Scientific Discourse - Call for comments on IG notes

Dear David,
thank you for your help! I just uploaded the last version of the document.

Regarding the citations module, I was surprised about your comment related
to FRBR as I uploaded in March a version of the citation module with the new
structure based on work, expression, manifestation. But you are right, for
some reasons (probably a wrong restore of the server) you can find online
only an old version of it. I'll try to upload the March version asap
(meanwhile I attach here the file). And I am looking forward  to plan a
discussion for a possible collaboration.

Thank you again
Paolo

On Fri, Sep 11, 2009 at 1:43 PM, David Shotton
<david.shotton@zoo.ox.ac.uk>wrote:

>  Alexandre Passant wrote:
>
> Dear HCLS IG members,
> On behalf of the Scientific Discourse Task Force [1], we are pleased to
> announce three notes on the topic of scientific discourse in HCLS.
> Hence, we'd like to solicit your comments on the following documents:
> - SIOC, SIOC Types and Health Care and Life Sciences :
> http://www.w3.org/2001/sw/hcls/notes/sioc/
> - Semantic Web Applications in Neuromedicine (SWAN) Ontology :
> http://www.w3.org/2001/sw/hcls/notes/swan/
> - SWAN/SIOC: Alignment Between the SWAN and SIOC Ontologies :
> http://www.w3.org/2001/sw/hcls/notes/swansioc/
> We'd be glad if you can provide feedback - if any - by replying to this
> e-mail before the 15th of September (i.e. two weeks from now).
> Thanks a lot,
> Regards
> Alex. and Paolo
>
> Dear Alex and Paolo,
>
> Greetings (since I have not met either of you to date).  Please find below
> my feedback on your excellent work.
>
> *A: Changes to the documents themselves
> *
> *SIOC, SIOC Types and Health Care and Life Sciences *and *SWAN/SIOC:
> Alignment Between the SWAN and SIOC Ontologies *
> No comments, other than that both documents read well.
>
> *Semantic Web Applications in Neuromedicine (SWAN) Ontology *
> Most of this document reads well and is clearly intelligible.  However, the
> English falls apart in a few places.  I attach a Word document (if you will
> forgive me!) using Track Changes to show proposed corrections.
>
> *B: Issues for further consideration*
>
> *Semantic Web Applications in Neuromedicine (SWAN) Ontology - Section 4: *
> *
> "citations*: it covers the requirements of the SWAN applictions but could
> be swapped with another ontology for representing bibliographic records such
> as the Bibliographic Ontology [BIBO<http://www.w3.org/2001/sw/hcls/notes/swan/#bibo>].
> "
>
> Yes, indeed.  Your "citations" have many overlaps with BIBO classes, and
> need to be harmonized.  However, what you describe as "citations" are what I
> describe as "cited works".  Para 1.1 from my paper on CiTO, the Citation
> Typing Ontology (attached), reads:
>
> *What is meant by a citation*
> In the context of the Citation Typing Ontology, a bibliographic citation is
> a reference within a particular citing work of another publication (e.g. a
> journal article, a book chapter or a web page) termed the cited work. This
> use of the word ‘citation’ should be distinguished from the common related
> use of this word to indicate the cited work itself. Within CiTO, ‘cite’ and
> 'citation' denote the performative act of citation itself, not the target of
> the citation.*
> *
>
> Is it possible for you to change SWAN to refer to "cited works" rather than
> "citations"?
>
> *SWAN/SIOC: Alignment Between the SWAN and SIOC Ontologies -* *Section
> 2.1. Alignment between properties *
> "In addition to the previous classes, mappings have been defined between
> different properties of the SWAN Scientific Discourse Module<http://swan.mindinformatics.org/spec/1.2/scientificdiscourse.html>and the SIOC Core Ontology."
>
> The SWAN Scientific Discourse Module has considerable overlap with the
> Citation Typing Ontology (CiTO; http://purl.org/net/cito/), although their
> purposes are subtly different.  Tim Clark, Alan Ruttenberg and I have agreed
> that we all need to get our heads together over this.  I apologise that over
> the last several weeks I have been preoccupied with planning and running
> last week's Standardization Workshop for MIIDI, a Minimal Information
> standard for reporting an Infectious Disease Investigation (for rough
> pre-release information about that see
> http://imageweb.zoo.ox.ac.uk/wiki/index.php/MIIDI).  However, from now on
> I should have more time to devote to harmonizing CiTO and the SWAN
> Scientific Discourse Module.  Perhaps we can start this conversation at the
> upcoming Workshop on Semantic Web Applications in Scientific Discourse at
> ISWC2009.
>
> *One final point*:  Both BIBO and SWAN do not adopt the FRBR (Functional
> Requirements for Bibliographic Records;
> http://www.ifla.org/VII/s13/frbr/frbr1.htm) classification of Work,
> Expression and Manifestation that I have adopted for CiTO.  As I say  in my
> CiTO paper:
>
> CiTO makes a clear distinction between the Work, the Expression of the
> work, and the Manifestation of that expression, distinctions that are not
> made by BIBO and SWAN. Despite the clumsiness of this FRBR nomenclature, and
> the occasional seemingly redundant terminology that results from its use
> (e.g. Work: Report; Expression: ReportDocument), this level of granularity
> avoids ambiguities of meaning present in these other ontologies.
>
> For example, you have the class *swansioc:OnlineJournal*, which conflated
> these concepts.  Whether that really matters is something we need to
> discuss.
>
> Unfortunately I am at yet another conference on Friday September 18th, so
> will sadly be unable to participate in the next scientific discourse
> conference call.  However, please put *SWAN-CiTO harmonization* on the
> agenda of work for 2009-10!
>
> Hope all this is helpful.
>
> Kind regards to everyone,
>
> David
>
>
>
> --
>
> Dr David Shotton
> david.shotton@zoo.ox.ac.uk <mailto:david.shotton@zoo.ox.ac.uk>
>  Reader in Image Bioinformatics
>
> Image Bioinformatics Research Group
> http://ibrg.zoo.ox.ac.uk
> Department of Zoology, University of Oxford                  tel:
> +44-(0)1865-271193
> South Parks Road, Oxford OX1 3PS, UK                    fax:
> +44-(0)1865-310447
>
>


-- 
Paolo Ciccarese, PhD
Biomedical Informatics Research & Development
Instructor of Neurology at Harvard Medical School
Assistant in Neuroscience at Mass General Hospital
Mobile +1-857-366-1524