- From: Peter DeVries <pete.devries@gmail.com>
- Date: Mon, 7 Jun 2010 19:39:05 -0500
- To: Toby Inkster <tai@g5n.co.uk>, public-lod@w3.org, pedantic-web@googlegroups.com
- Message-ID: <AANLkTik1IlQflK8N3hqjnai0cs0LfS3jf1R2rjdOnu7r@mail.gmail.com>
The new examples of the species concepts are now live via Sindice. You can find links to them on this page: http://www.taxonconcept.org/example-taxa/ - Pete On Mon, Jun 7, 2010 at 2:25 AM, Peter DeVries <pete.devries@gmail.com>wrote: > I have made the changes they are visible in this RDF. > > http://lod.taxonconcept.org/ses/mCcSp.rdf > > <http://lod.taxonconcept.org/ses/mCcSp.rdf>I have also updated the > following: > > http://lod.taxonconcept.org/sitemap.xml.gz (Removed some problematic > Fungi, now about 66,000 species) > > http://lod.taxonconcept.org/taxonconcept_subset.rdf.gz > > Ontology: http://lod.taxonconcept.org/ontology/txn.owl > > Ontology Doc: http://lod.taxonconcept.org/ontology/doc/index.html > > The Biol predicates are set as *equivalentproperty*. > > Biol Taxonomies are of type Taxonomy, so I created a new Tag < > http://lod.taxonconcept.org/ses/mCcSp#Taxonomy > > <txn:SpeciesTaxonomyTag rdf:about=" > http://lod.taxonconcept.org/ses/mCcSp#Taxonomy"> > <skos:prefLabel>A Tag-like resource that is used to label taxonomies of > the species concept Danaus plexippus se:mCcSp</skos:prefLabel> > <txn:speciesTaxonomyTagHasSpeciesConcept rdf:resource=" > http://lod.taxonconcept.org/ses/mCcSp#Species"/> > <txn:kingdom>Animalia</txn:kingdom> > <txn:phylum>Arthropoda</txn:phylum> > <txn:class>Insecta</txn:class> > <txn:order>Lepidoptera</txn:order> > <txn:family>Nymphalidae</txn:family> > <txn:genus>Danaus</txn:genus> > <txn:specificEpithet>plexippus</txn:specificEpithet> > <txn:scientificNameAuthorship>(Linnaeus, > 1758)</txn:scientificNameAuthorship> > <txn:commonName>Monarch Butterfly</txn:commonName> > </txn:SpeciesTaxonomyTag> > > I have also added these links to EUNIS, although they maybe somewhat > problematic since these are the same URI's as the foaf:page. > > <eunis:SpeciesSynonym rdf:about=" > http://eunis.eea.europa.eu/species/90910"> > <skos:closeMatch rdf:resource=" > http://lod.taxonconcept.org/ses/mCcSp#Species"/> > <rdfs:seeAlso rdf:resource="http://eunis.eea.europa.eu/species/90910 > "/> > </eunis:SpeciesSynonym> > > - Pete > > On Sun, Jun 6, 2010 at 4:13 PM, Peter DeVries <pete.devries@gmail.com>wrote: > >> Hi Toby, >> >> Here is where we seem to have some differences. >> >> txn:species "plexippus" ; >> txn:authority "Linnaeus, 1758" ; >> >> >> txn:epithet "plexippus" ; >> txn:author_year "(Linnaeus, 1758)" ; >> >> >> I looked at the latest DarwinCore < >> http://code.google.com/p/darwincore/wiki/Taxon > >> >> Since it would be helpful to allow people to rewrite these easily, or the >> txn: set equivalent property to. >> >> I think it might be best to adopt their set. >> * >> * >> *genus: Carex* >> * >> * >> *specificEpithet: viridula* >> * >> * >> *infraspecificEpithet: elatior* >> * >> * >> *taxonRank: varietas* >> * >> * >> *scientificNameAuthorship: (Schltdl.) Crins* >> * >> * >> *Ideally the scientific name would include the authorship and have three >> parts to comply with the nomenclatural code (ICBN in this case):* >> * >> * >> *Carex viridula var. elatior (Schltdl.) Crins* >> >> I am thinking I should do the following: >> >> txn:genus >> txn:specificEpithet >> txn:infraspecificEpithet <- am not using these now >> txn:scientificNameAuthorship >> txn:taxonRank >> >> DarwinCore does not have a dwc:commonName. >> >> >> I can then set your versions for the same thing as equivalent properties >> in my ontology. I will also cite your ontology in my ontology doc. >> >> Does everyone think that this will work? Or is there some side effect I am >> not thinking off? >> >> Should I also set the DarwinCore attributes as equivalent properties. >> >> If you look at this page: <http://code.google.com/p/darwincore/wiki/Taxon> >> >> You will see what I am talking about in regards to Darwin core literals >> vs. URI's >> >> The taxonRanks should probably be represented as URI's rather than >> literals. >> >> Also note that it is likely that different groups, Wikipedia, ITIS, NCBI >> etc. place the taxa in slightly different groups. >> >> So we are likely to see things like this in the cloud, note the duplicate >> genus and epithet names for the same vocab. >> >> http://lod.taxonconcept.org/ses/x6gDo#Species >> >> txn:genus => Lithobates >> txn:genus => Rana >> txn:epithet => catesbeianus >> txn:epithet => catesbeiana >> >> Also Note that it is difficult to tell which genus name goes with which >> epithet? >> >> <foaf:page rdf:resource="http://en.wikipedia.org/wiki/Bullfrog"/> >> <foaf:page rdf:resource=" >> http://species.wikimedia.org/wiki/Rana_catesbeiana"/> >> <foaf:page rdf:resource="http://www.eol.org/pages/330963"/> >> <foaf:page rdf:resource="http://eunis.eea.europa.eu/species/10586"/> >> <foaf:page rdf:resource=" >> http://www.itis.gov/servlet/SingleRpt/SingleRpt?search_topic=TSN&search_value=775084<http://www.itis.gov/servlet/SingleRpt/SingleRpt?search_topic=TSN&search_value=775084> >> "/> >> <txn:hasGBIF>13801188</txn:hasGBIF> >> <txn:hasITIS>775084</txn:hasITIS> >> <txn:hasEOL>330963</txn:hasEOL> >> <txn:hasNCBI>8400</txn:hasNCBI> >> >> This is one reason that I have started to think about linking out to >> several alternative phylogenies. Right now I only have some to class. >> >> <txn:inDBpediaClade rdf:resource=" >> http://dbpedia.org/ontology/Amphibian"/> >> <txn:inCoLClass rdf:resource=" >> http://lod.taxonconcept.org/ontology/phylo/CoL/CoL_2010_base.owl#Class_Amphibia >> "/> >> >> On Sun, Jun 6, 2010 at 2:06 PM, Kingsley Idehen <kidehen@openlinksw.com>wrote: >> >>> Toby Inkster wrote: >>> >>>> On Fri, 4 Jun 2010 18:06:08 -0500 >>>> Peter DeVries <pete.devries@gmail.com> wrote: >>>> >>>> >>>> >>>>> I would appreciate feedback on these models and any suggestions for >>>>> how they could be improved. :-) >>>>> >>>>> >>>> >>>> The following: >>>> >>>> @prefix txn: <http://lod.taxonconcept.org/ontology/txn.owl#> . >>>> >>>> <http://lod.taxonconcept.org/ses/mCcSp#Species> >>>> a owl:Class ; >>>> txn:kingdom "Animalia" ; >>>> txn:phylum "Arthropoda" ; >>>> txn:class "Insecta" ; >>>> txn:order "Lepidoptera" ; >>>> txn:family "Nymphalidae" ; >>>> txn:genus "Danaus" ; >>>> txn:epithet "plexippus" ; >>>> txn:author_year "(Linnaeus, 1758)" ; >>>> txn:commonName "Monarch Butterfly" ; >>>> foaf:page <foo> . >>>> >>>> Appears to be an almost identical way of representing a species concept >>>> to the one I came up with a couple of years ago: >>>> >>>> @prefix txn: <http://purl.org/NET/biol/ns#> . >>>> >>>> <http://lod.taxonconcept.org/ses/mCcSp#Species> >>>> a txn:Taxonomy ; >>>> # note: txn:Taxonomy rdfs:subClassOf rdfs:Class. >>>> txn:kingdom "Animalia" ; >>>> txn:phylum "Arthropoda" ; >>>> txn:class "Insecta" ; >>>> txn:order "Lepidoptera" ; >>>> txn:family "Nymphalidae" ; >>>> txn:genus "Danaus" ; >>>> txn:species "plexippus" ; >>>> txn:authority "Linnaeus, 1758" ; >>>> txn:commonName "Monarch Butterfly" ; >>>> txn:seeAlso <foo> . >>>> >>>> I wonder if you could reuse the URIs I minted rather than creating new >>>> ones? >>>> >>>> >>> >>> Peter, >>> >>> +1 >>> >>> Re. reuse request from Toby. It early days, so little or no cost ;_ >>> >>> If we could stamp out any incompatibilities between the two ontologies, >>>> then I'd be happy to point the http://purl.org/NET/biol/ns URI at your >>>> ontology, so we'd just have a single merged ontology. >>>> >>>> >>> >>> Great! >>> >>> >>> -- >>> >>> Regards, >>> >>> Kingsley Idehen President & CEO OpenLink Software Web: >>> http://www.openlinksw.com >>> Weblog: http://www.openlinksw.com/blog/~kidehen >>> Twitter/Identi.ca: kidehen >>> >>> >>> >>> >>> >> >> >> -- >> ---------------------------------------------------------------- >> Pete DeVries >> Department of Entomology >> University of Wisconsin - Madison >> 445 Russell Laboratories >> 1630 Linden Drive >> Madison, WI 53706 >> GeoSpecies Knowledge Base >> About the GeoSpecies Knowledge Base >> ------------------------------------------------------------ >> > > > > -- > ---------------------------------------------------------------- > Pete DeVries > Department of Entomology > University of Wisconsin - Madison > 445 Russell Laboratories > 1630 Linden Drive > Madison, WI 53706 > GeoSpecies Knowledge Base > About the GeoSpecies Knowledge Base > ------------------------------------------------------------ > -- ---------------------------------------------------------------- Pete DeVries Department of Entomology University of Wisconsin - Madison 445 Russell Laboratories 1630 Linden Drive Madison, WI 53706 GeoSpecies Knowledge Base About the GeoSpecies Knowledge Base ------------------------------------------------------------
Received on Tuesday, 8 June 2010 00:46:06 UTC