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Hi;<br>
<br>
On og., 2011.eko apiren 28a 15:41, Steve Baskauf wrote:
<blockquote cite="mid:4DB96E9D.8010403@vanderbilt.edu" type="cite">
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Mikel,<br>
Thanks for your suggestion. There was quite a bit of discussion
last
October and November about how to handle groups of organisms above
the
level of an individual organism. I won't repeat it here because
it's
referenced in the DSW wiki pages, particularly
<a moz-do-not-send="true" class="moz-txt-link-freetext"
href="http://code.google.com/p/darwin-sw/wiki/ClassIndividual">http://code.google.com/p/darwin-sw/wiki/ClassIndividual</a>
. As a point
of clarification, the class dsw:IndividualOrganism as we have
defined
it in DSW does not specify that an instance of the class must
actually
be an individual organism. It should be understood to be a
taxonomically homogeneous entity which can be assigned zero to
many
dwc:Identification instances, be recorded by zero to many
dwc:Occurrence instances, and be documented by zero to many
dsw:Token
instances . So really anything that meets those criteria could be
considered a dsw:IndividualOrganism, including clonal organisms,
colonial organisms, small populations, and I suppose also parts of
organisms (such as tissue cultures) if one wanted. At one point
we
considered using the name TaxonomicallyHomogeneousEntity, but that
seemed unwieldy. <br>
<br>
So I guess my response would be to say that a population could be
considered an instance of dsw:IndividualOrganism. It would need
to be
well-defined enough that it could be potentially documented as a
dwc:Occurrence, but since dwc:Event and dcterms:Location (which
are
associated with a dwc:Occurrence) can potentially have a very
broad
scope, I think that there would not be a problem with classing a
population as a dsw:IndividualOrganism . Certainly entities such
as a
stable animal herd or immobile plant population could be handled
by it
and maybe other things as well.<br>
<br>
I should also note that the page
<a moz-do-not-send="true" class="moz-txt-link-freetext"
href="http://code.google.com/p/darwin-sw/wiki/TaxonomicHeterogeneity">http://code.google.com/p/darwin-sw/wiki/TaxonomicHeterogeneity</a>
presents
the topic of how to model taxonomically heterogeneous groups of
organisms, which was the topic of an extended discussion in
November.
We did not include a class to handle such groups in our basic
ontology,
mostly because we didn't know how to do it. However, the wiki
page
just mentioned suggests a possible approach and perhaps people
with
more skill in defining OWL ontologies than Cam and I have could
suggest
an approach that would actually be able to handle that more
complex
situation. <br>
</blockquote>
<br>
I see, so dsw:IndividualOrganism should do for populations. I'm
asking cause I have some biodiversity data that perhaps I will
publish as Linked Data (Depending on the funding :-) and the data
always follow the taxon-population pattern, having for each taxon
many populations. I would like to use dsw as vocabulary, most
probably extending it to accomodate further concepts like Situation
(At risk, etc.)<br>
<br>
<blockquote cite="mid:4DB96E9D.8010403@vanderbilt.edu" type="cite">
<br>
I did not state in my first email that DSW is essentially a draft
intended to foster discussion (such as this). We make no claims
that
it is or should be "THE" ontology. Cam and I needed something
functional for our projects, so we just made DSW to serve that
purpose. <br>
<br>
Thanks again for the comment/suggestion!<br>
</blockquote>
<br>
Have you considered including this ontology in Open Biological and
Biomedical Ontologies (<a class="moz-txt-link-freetext" href="http://www.obofoundry.org/">http://www.obofoundry.org/</a>)?<br>
<br>
Cheers<br>
<br>
<blockquote cite="mid:4DB96E9D.8010403@vanderbilt.edu" type="cite">
<br>
Steve<br>
<br>
Mikel Egaña Aranguren wrote:
<blockquote cite="mid:4DB968BD.2090602@fi.upm.es" type="cite">
<pre wrap="">Hi;
Perhaps this has been discussed before, but I think there should be a
class for population.
Different populations of the same taxon are located in different places,
each population with its own circumstances (e.g. some will be at risk
and some not).
Cheers
On og., 2011.eko apiren 28a 04:01, Steve Baskauf wrote:
</pre>
<blockquote type="cite">
<pre wrap="">Dear colleagues,
With the exciting development of Semantic Web technologies, many of us already need a way to consistently express DwC in RDF. In particular, we need it to meet the requirements for GUID resolution (as expressed in the TDWG applicability guide) and to be able to share and aggregate diverse kinds of biodiversity metadata in the Linked Open Data world.
After several months of development, stimulated by the tdwg-content discussions of last Fall, we would like to offer an
ontology for consideration, based on Darwin Core terms:
Darwin-SW:
General site: <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://code.google.com/p/darwin-sw/">http://code.google.com/p/darwin-sw/</a>
Using namespace dsw = <a moz-do-not-send="true" class="moz-txt-link-rfc2396E" href="http://purl.org/dsw/">"http://purl.org/dsw/"</a>
It is a candidate for general usage, but we do not claim it is _the_ solution, and greatly respect the efforts by others to develop similar ontologies, from which we have learned much. However, for DSW, we wanted to use existing DwC terms for classes and data properties whenever possible and only create new terms when there were no existing terms that would do the job. We did feel that there was a need for clarity in how resources should be typed (i.e. rdf:type property) and for object properties that expressed the relationships among classes unambiguously. Please see the Rationale, DesignPrinciples and ClassesAndTypes wiki pages at the above address.
In the ontology, we sought to embody relationships among classes based on our perception of the community consensus of what the classes represent and how they are related to each other, as expressed in posts to the tdwg-content list. Thus each class is documented carefully on the wiki with hyperlinked references to specific tdwg-content posts. We also sought
to clarify or resolve issues that were raised in the list discussion, most notably the relationship among Occurrences and the evidence that documents them (i.e. tokens), and the role of "individuals". See wiki pages for the Token, Occurrence, and IndividualOrganism classes.
The ontology is now in use at <a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://bioimages.vanderbilt.edu/">http://bioimages.vanderbilt.edu/</a>, and we intend to use it more widely. We would value your opinions on the fitness of this ontology as a general solution for consistently expressing DwC concepts in RDF.
Sincerely,
Steve Baskauf and Cam Webb
<a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="mailto:steve.baskauf@Vanderbilt.Edu">steve.baskauf@Vanderbilt.Edu</a>
<a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="mailto:cwebb@oeb.harvard.edu">cwebb@oeb.harvard.edu</a>
_______________________________________________
tdwg-content mailing list
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<a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://lists.tdwg.org/mailman/listinfo/tdwg-content">http://lists.tdwg.org/mailman/listinfo/tdwg-content</a>
</pre>
</blockquote>
<pre wrap=""><!---->
</pre>
</blockquote>
<br>
<pre class="moz-signature" cols="72">--
Steven J. Baskauf, Ph.D., Senior Lecturer
Vanderbilt University Dept. of Biological Sciences
postal mail address:
VU Station B 351634
Nashville, TN 37235-1634, U.S.A.
delivery address:
2125 Stevenson Center
1161 21st Ave., S.
Nashville, TN 37235
office: 2128 Stevenson Center
phone: (615) 343-4582, fax: (615) 343-6707
<a moz-do-not-send="true" class="moz-txt-link-freetext" href="http://bioimages.vanderbilt.edu">http://bioimages.vanderbilt.edu</a>
</pre>
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<br>
<br>
<pre class="moz-signature" cols="72">--
Mikel Egaña Aranguren, PhD
<a class="moz-txt-link-freetext" href="http://mikeleganaaranguren.com">http://mikeleganaaranguren.com</a>
Marie Curie post-doc at Ontology Engineering Group, UPM
<a class="moz-txt-link-freetext" href="http://www.oeg-upm.net/">http://www.oeg-upm.net/</a></pre>
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