Hi,
My name is Chris Baron - a software developer, computer science graduate student interested in linked data, working in BioSync at the Field Museum on tree visualization. I have a few ideas on how to publish trees in RDF (have even created a tool to do so) and would like to speak to Biologists about how their data exists at publication so I can form a proper solution.
On Tue, Oct 19, 2010 at 5:00 AM, tdwg-phylo-request@lists.tdwg.org wrote:
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Today's Topics:
- publishing trees in CDAO as linked open data? (Arlin Stoltzfus)
Message: 1 Date: Mon, 18 Oct 2010 12:32:39 -0400 From: Arlin Stoltzfus arlin@umd.edu Subject: [Tdwg-phylo] publishing trees in CDAO as linked open data? To: CDAO list cdao-discuss@lists.sourceforge.net, Phylogenetics Standards Interest Group tdwg-phylo@lists.tdwg.org Message-ID: BAAFA68C-2622-409A-B530-1CABADC36016@umd.edu Content-Type: text/plain; charset="US-ASCII"; format=flowed; delsp=yes
Dear all--
At the Biodiversity Information Standards (TDWG) meeting last month, a sub-group of the phylogenetic standards working group started a project to assess "current best practices for publishing trees electronically". At present, probably the best way to publish a tree is to use the TreeBASE submission process, which makes it possible to upload a NEXUS file and create associations of OTUs with taxon IDs, and of data rows with accessions, and so on. But there are also some other possibilities. The preliminary report is being assembled here:
http://wiki.tdwg.org/twiki/bin/view/Phylogenetics/LinkingTrees2010
Our plan is (over the next 6 weeks) to get feedback on this preliminary report, then analyze the results and prepare a more extensive report for publication.
One possibility that we haven't examined yet is to publish a tree electronically by rendering it in RDF in the language of CDAO (Comparative Data Analysis Ontology) and then contributing it to the Linked-Open-Data cloud in some way.
Does anyone out there want to explore this idea and contribute the results to the TDWG project? If so, please let me know.
Arlin
Arlin Stoltzfus (arlin@umd.edu) Fellow, IBBR; Adj. Assoc. Prof., UMCP; Research Biologist, NIST IBBR, 9600 Gudelsky Drive, Rockville, MD tel: 240 314 6208; web: www.molevol.org
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End of tdwg-phylo Digest, Vol 2, Issue 3