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Community content building for evolutionary biology<br />Lessons learned from LepTree and Encyclopedia of Life<br />Cynthi...
Today’s story<br />LepTree and Encyclopedia of Life built a couple of websites<br />LepTree: slow for social content-build...
LepTreehttp://leptree.net<br />
Community features<br />Blog<br />Commenting<br />Forum<br />Working Groups<br />
Complex LepTreetaxontemplate<br />
LepTree built semantic tools, then invited data entry<br />Export<br />
http://www.eol.org<br /><ul><li>All species known to science
Freely accessible: open access, open source
Available from a single portal in a common format
Quality
Always growing as new species are discovered and new knowledge is generated</li></li></ul><li>Typical species page<br />
http://www.eol.org/content_partner<br />Objects can come from many partners<br />Objects are sorted by topic<br />Each par...
EOL aggregates, then annotates<br />Catalogue of Life<br />IUCN<br />Content providers<br />Databases<br />LifeDesks<br />...
LepTree’s data approach is more complex and customized <br />LepTree<br /><ul><li>Highly structured348 content “fields”
Big S semantics (OWL, RDF triple store). Tied to people and project ontologies
Custom data entry: required new workflow</li></ul>EOL<br /><ul><li>Very coarsely structured33 subjects (TDWG Species Profi...
XML schema
Variety of data paths: avoid changes in workflow</li></li></ul><li>Comparing stats . . .<br />LepTree<br />EOL<br /><ul><l...
1750 pages (107 rich pages + ~450 fossils) + ~1600 images)
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Community content building for evolutionary biology: Lessons learned from LepTree and Encyclopedia of Life

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Presented at iEvoBio: Informatics for Phylogeny, Evolution, and Biodiversity in Portland, OR 29 June 2010

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Community content building for evolutionary biology: Lessons learned from LepTree and Encyclopedia of Life

  1. 1. Community content building for evolutionary biology<br />Lessons learned from LepTree and Encyclopedia of Life<br />Cynthia Parr<br />Smithsonian Institution<br />University of Maryland<br />
  2. 2. Today’s story<br />LepTree and Encyclopedia of Life built a couple of websites<br />LepTree: slow for social content-building but highly useful content<br />EOL: quick for content aggregation, but now need to atomize and semanticize<br />Conclusion: Best of both worlds<br />
  3. 3. LepTreehttp://leptree.net<br />
  4. 4. Community features<br />Blog<br />Commenting<br />Forum<br />Working Groups<br />
  5. 5. Complex LepTreetaxontemplate<br />
  6. 6. LepTree built semantic tools, then invited data entry<br />Export<br />
  7. 7. http://www.eol.org<br /><ul><li>All species known to science
  8. 8. Freely accessible: open access, open source
  9. 9. Available from a single portal in a common format
  10. 10. Quality
  11. 11. Always growing as new species are discovered and new knowledge is generated</li></li></ul><li>Typical species page<br />
  12. 12. http://www.eol.org/content_partner<br />Objects can come from many partners<br />Objects are sorted by topic<br />Each partner gets credit<br />
  13. 13. EOL aggregates, then annotates<br />Catalogue of Life<br />IUCN<br />Content providers<br />Databases<br />LifeDesks<br /> Public contribution<br />Curating<br />Commenting<br />Tagging<br />GBIF<br />Biodiversity Heritage Library<br />http://www.eol.org/content_partner<br />
  14. 14. LepTree’s data approach is more complex and customized <br />LepTree<br /><ul><li>Highly structured348 content “fields”
  15. 15. Big S semantics (OWL, RDF triple store). Tied to people and project ontologies
  16. 16. Custom data entry: required new workflow</li></ul>EOL<br /><ul><li>Very coarsely structured33 subjects (TDWG Species Profile Model)
  17. 17. XML schema
  18. 18. Variety of data paths: avoid changes in workflow</li></li></ul><li>Comparing stats . . .<br />LepTree<br />EOL<br /><ul><li>2 content partners23 contributors/260 members
  19. 19. 1750 pages (107 rich pages + ~450 fossils) + ~1600 images)
  20. 20. 75thousand triples </li></ul>43per taxon<br />3300 per contributor<br /><ul><li>>45 content partners430 curators/1000s contributors/~43,000 members
  21. 21. 2.4 million pages390 thousand pages with objects
  22. 22. 1.7 million data objects and 889K taxa with BHL links BUT0 are atomized</li></li></ul><li>What LepTree has done with triples<br />Nothing.<br />So far.<br />
  23. 23. Community areas of LepTree are flat <br />
  24. 24. EOL’s content trajectory is promising<br />Species pages with a vetted object<br />Year<br />
  25. 25. Lessons learned<br /><ul><li>Semanticizing tools wasn’t productivebut structuring was…
  26. 26. Communities are hard!
  27. 27. Divide and conquer should scale</li></li></ul><li>Future plans<br />LepTree<br />Build<br />Expose <br />Share<br />EOL<br />Partner<br />Atomize<br />Semanticize<br />Delight<br /><ul><li>APIs
  28. 28. Phylogenies
  29. 29. Visualizations</li></li></ul><li>Thank you<br />http://leptree.net<br />Leadership:, Mike Cummings, Don Davis , Charlie Mitter, Jerry Regier, Susan Weller<br /> Developers: John Park, Joshua Kim, Phuong Nguyen, Matt Chan, Matthew Conte, DanhLuong, Adam Bazinet, Erica Olson<br />Biologists: John Brown, Dana Campbell, Soowon Cho, Amanda Roe, Jennifer Zaspel, Jae-CheonSohn, Akito Kawahara, Andreas Zwick, Kim Mitter, April Dinwiddie <br />Funding: National Science Foundation AToL<br />http://www.eol.org<br />Leadership: Jim Edwards, David Patterson, Nathan Wilson, Bob Corrigan, Mark Westneat, Marie Studer, Tom Garnett<br />Developers: Peter Mangiafico, Patrick Leary, Jeremy Rice, DimitriMozzherin, David Shorthouse, Lisa Whalley and others<br />Biologists: Katja Schulz, Jennifer Hammock, Tanya Dewey, Audrey Aronowsky. Leo Shapiro, R. Allen<br />Funding:John D. and Catherine T. MacArthur Foundation, Alfred P. Sloan Foundation, Cornerstone Institutions, Private Donors<br />
  30. 30. EOL Cornerstone Institutions<br />Sample Content Partners<br />AmphibiaWeb<br />Animal Diversity Web<br />AntWeb<br />Catalogue of Life<br />FishBase<br />Global Biodiversity Information Facility (GBIF)<br />International Union for the Conservation of Nature<br />Tree of Life Web Project<br />The Biodiversity Heritage Library<br />The Field Museum of Natural History<br />The Missouri Botanical Garden<br />The Marine Biological Laboratory <br />Harvard University<br />The Smithsonian Institution<br />

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