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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">Pete<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">I think that a good portion of your comments and questions here will be taking TDWGers and TAXACOMers back to old and very thrashed out arguments. but it
is always good to recap.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">I think you will find the TAG and GUID subgroups of TDWG very interesting. Over the past 5 years or so, it has been a well recognised fact that GUIDs (Globally
Unique Identifiers - UUIDs, URIs etc), are a key component to working with global data, integration and reuse of those data. This is explained on the TAG wiki site (<a href="http://wiki.tdwg.org/twiki/bin/view/TAG/WebHome">http://wiki.tdwg.org/twiki/bin/view/TAG/WebHome</a>),
where one of the main points is the 3 legs of a stool that provide a foundation to a good architecture - GUIDs, Protocols and Ontologies.
<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">One of the results of these working groups has been the investigation and adoption of a particular GUID type called LSID (Life Science Identifiers). One
of the driving reasons for preference for LSIDs is the fact that they have a degree of separation from "hard coded" URLs, which can all too easily be broken. The recommended metadata format for responses of resolving LSIDs is RDF. And as this has shown itself
to be a more elegant approach to modeling data and data standards, RDF has been adopted to some degree as the modeling format for some of the TDWG standards. The major data components of interest to TDWG, including taxon names, have been developed into RDF
ontologies and can be seen at <a href="http://wiki.tdwg.org/twiki/bin/view/TAG/LsidVocs">
http://wiki.tdwg.org/twiki/bin/view/TAG/LsidVocs</a>. So this will be of interest to you.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">I think you are touching on two very different areas of discussion below - one of them is really "what is a species and how do we attach GUIDs to them?",
and I think you are covering fairly well in your other thread. The other area, and probably the easier area to discuss, is purely what GUID and data representation technologies to use for delivering the data we are interested in, and how to handle changes
to that data. Being from an IT background I always view this problem from a data perspective and tend to think of a database record being the object being identified - if you change the database record, and people were relying on the essential details of
that record, then we could easily end up with invalidated data - I therefore suggest if any essential part of a data record is being modified, that the record get a new GUID (and with my limited understanding of taxonomic intricacies, I would really think
that if you are changing the "concept"/understanding/meaning of a species record, then it should be given a new GUID.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">So I think the answer to your question must be yes, we do have quite an interest in the topics you covered.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">I hope this helps.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">Kevin<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D">PS I attempted to view your talk using the link you gave and I was not sure what to do next to see the talk itself. I attempted to browse to "Recorded Presentation",
but I needed a login, which I do not have???<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D"><o:p> </o:p></span></p>
<div style="border:none;border-top:solid #B5C4DF 1.0pt;padding:3.0pt 0cm 0cm 0cm">
<p class="MsoNormal"><b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif"">From:</span></b><span style="font-size:10.0pt;font-family:"Tahoma","sans-serif""> tdwg-bounces@lists.tdwg.org [mailto:tdwg-bounces@lists.tdwg.org]
<b>On Behalf Of </b>Peter DeVries<br>
<b>Sent:</b> Friday, 23 January 2009 3:58 p.m.<br>
<b>To:</b> tdwg@lists.tdwg.org; Taxacom@mailman.nhm.ku.edu<br>
<b>Cc:</b> lyricb@iastate.edu; Young@entomology.wisc.edu; raffa@entomology.wisc.edu; sbcarrol@wisc.edu<br>
<b>Subject:</b> [tdwg] ESA 2008 Talk Using Semantic Web technologies to tie together disparate data about species .. Unique URI for each taxon<o:p></o:p></span></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I don't know how many of you are working with Semantic Web technologies, but I did a talk at the<o:p></o:p></p>
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<p class="MsoNormal">2008 Meeting of the Entomological Society of America Meeting in Reno.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">You can see it here : <a href="http://esa.confex.com/esa/2008/webprogram/Paper39190.html">http://esa.confex.com/esa/2008/webprogram/Paper39190.html</a> <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">One of the issues that I have been struggling with is the need for a unique identifier for a species<o:p></o:p></p>
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<p class="MsoNormal">concept that stays the same despite changes in taxonomic hypotheses. When I brought this up<o:p></o:p></p>
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<p class="MsoNormal">earlier some mentioned that many considered the taxonomic hypothesis to be the species concept.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
</div>
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<p class="MsoNormal">I thought that this approach was wrong because it unnecessarily required me to convince one of my<o:p></o:p></p>
</div>
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<p class="MsoNormal">collaborators to adopt my taxonomic hypothesis when it was clear we were talking about the same<o:p></o:p></p>
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<p class="MsoNormal">species.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">To me a species is a real thing to which different taxonomic hypothesis are applied.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<div>
<p class="MsoNormal">With this in mind I implemented a system where each species has a unique URI which resolves according<o:p></o:p></p>
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<p class="MsoNormal">to the recommendations of the linked data community.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">You can see this service at: <a href="http://species.geospecies.org/">http://species.geospecies.org/</a> <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">Here is the page for Culicidae <a href="http://species.geospecies.org/families/Culicidae">http://species.geospecies.org/families/Culicidae</a> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">Here is an example of the URI for <span class="apple-style-span">
<i>Aedes vexans</i></span><o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal"><a href="http://species.geospecies.org/spec_concept_uuid/0fcb5b7e-bcfc-4b56-b565-e1e38768badd/">http://species.geospecies.org/spec_concept_uuid/0fcb5b7e-bcfc-4b56-b565-e1e38768badd/</a> <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<div>
<p class="MsoNormal">For a web browser this will resolve to the human readable page, for a semantic web crawler<o:p></o:p></p>
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<p class="MsoNormal">it will respond with RDF data.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">Here is journal reference marked up using the two major bibliography ontologies that includes<o:p></o:p></p>
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<p class="MsoNormal">what species concepts are included in the article. This allows publications to retain links to<o:p></o:p></p>
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<p class="MsoNormal">species concepts despite changes in nomenclature.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><a href="http://rdf.geospecies.org/refs/sucaet2008wbr/index.rdf">http://rdf.geospecies.org/refs/sucaet2008wbr/index.rdf</a> <o:p></o:p></p>
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<div>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Here is an RDF file of species observation records (the web version is currently password protected)<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><a href="http://rdf.geospecies.org/observations/index.rdf">http://rdf.geospecies.org/observations/index.rdf</a> <o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">I have chosen the UUID as the mechanism to make unique URI's not because of their inherent beauty,<o:p></o:p></p>
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<div>
<p class="MsoNormal">but because the allow anyone on almost any platform to create a unique id without worrying about to<o:p></o:p></p>
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<p class="MsoNormal">identical id's being created.<o:p></o:p></p>
</div>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">For those interested, I can send you a PDF of my talk slides and text.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
</div>
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<p class="MsoNormal">I would also appreciate any feedback or suggestions :-)<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
</div>
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<p class="MsoNormal">- Pete<o:p></o:p></p>
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<p class="MsoNormal"><span class="apple-style-span"><span style="font-size:9.0pt;
font-family:"Helvetica","sans-serif""><o:p> </o:p></span></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">---------------------------------------------------------------</span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">Pete DeVries<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">Department of Entomology<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">University of Wisconsin - Madison<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">445 Russell Laboratories<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">1630 Linden Drive<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">Madison, WI 53706<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">Email: <a href="mailto:pdevries@wisc.edu">pdevries@wisc.edu</a><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif""><a href="http://insects.entomology.wisc.edu/"><span class="apple-style-span"><span style="color:#0000EE">Insects of Wisconsin</span></span></a> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif""><a href="http://spiders.entomology.wisc.edu/"><span class="apple-style-span"><span style="color:#0000EE">Spiders of Wisconsin</span></span></a><o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif"">------------------------------------------------------------<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica","sans-serif""><o:p> </o:p></span></p>
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