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Using and extending Darwin Core for structured attribute data

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Using and extending Darwin Core for structured attribute data

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Presented at the Biodiversity Information Standards (Taxonomic Databases Working Group) 2013 meeting in Florence, Italy on 29 October 2013. Essentially, an introduction to the new trait repository of Encyclopedia of Life.

Presented at the Biodiversity Information Standards (Taxonomic Databases Working Group) 2013 meeting in Florence, Italy on 29 October 2013. Essentially, an introduction to the new trait repository of Encyclopedia of Life.

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Using and extending Darwin Core for structured attribute data

  1. 1. eol.org @eol @cydparr Using and Extending Darwin Core for structured attribute data
  2. 2. How EOL works Harvest EOL Crowds Third party applications
  3. 3. EOL Today Milestones in 2013 • 1.3 million species pages with content • 250+ content providers • 3.3 million unique annual visitors from 235 countries
  4. 4. Thousands of text objects 0 Subject of text object Distribution Molecular Biology Combined Topics Type Information Habitat Conservation Status 200 400 600 800 1000
  5. 5. The road to TraitBank In second year of 2 year project: Marine Expert Audience Conservation science Virtuoso triple store <scientific name> <hasAvgBodyMass in g> <value> <scientific name> <preysOn> <scientific name> Beta testing NOW for public launch early 2014 21 datasets with 2.8 million data records for 520,000 taxa Harvest, display, curate, search, download Up soon More data Machine access Direct contribution, upload From text mining From literature tables From data papers From databases
  6. 6. Data model for Traits Vernacular Name extension Media extension (with Audubon Core) MeasurementType MeasurementValue New class References extension AssociationType Agents extension
  7. 7. Uploading Darwin Core Archives Common names Taxa References MeasurementsOrFacts Associations Events Occurrences
  8. 8. Quick facts
  9. 9. Data tab
  10. 10. Expanded data record
  11. 11. Search & Download
  12. 12. Download
  13. 13. Annotation of a specimen record Ovary size and reproductive state Age markers Fat status Body mass and other size attributes
  14. 14. Annotation of an observation record
  15. 15. Participate Public beta now – send me EOL login ASAP Recommend structured data – ANYTIME Provide feedback at demo on Wednesday 5:30pm Nathan Wilson & I talking more about semantics and interoperability on Friday morning 11:36 @cydparr parrc@si.edu
  16. 16. Research Sprint proposals due Nov 15 • 4 day workshop at NESCent • Use BHL or EOL and other sources to tackle biological questions • Will match each awardee with informatics expert (contact me, prefer BHL/EOL API or content partner experience) @cydparr parrc@si.edu Thanks to Lounsbery Foundation & David Rubenstein
  17. 17. Thanks github.com/eol Cynthia Parr Chief Scientist @eol @cydparr parrc@si.edu Co-authors: Patrick Leary, Jennifer Hammock, Katja Schulz, Nathan Wilson Contributors Image credits Our content partners Michal Koupy and biolib.cz Thousands of individual Jenny from Taipei contributors, and hundreds of Janet Hinshaw, UMMZ volunteer curators Ken-ichi Ueda EOL Science Advisors msr Private beta survey respondents Funding Alfred P. Sloan Foundation Smithsonian Institution David Rubenstein Marine Biological Laboratory Lounsbery Foundation Harvard University

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