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Biodiversity informatics: digitising the living world

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Talk given to HATII at Glasgow

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Biodiversity informatics: digitising the living world

  1. 1. @rdmpage http://iphylo.blogspot.com Biodiversity informatics: Digitising the living world
  2. 2. https://www.flickr.com/photos/nhm_beetle_id/15930177695
  3. 3. GBIF.org 500 million records
  4. 4. Specimens recorded from “USA”
  5. 5. 441,023 data points in Kenya…
  6. 6. None of the data about Kenya comes from Kenya
  7. 7. iNaturalist
  8. 8. EOL photos in Flickr http://dx.doi.org/10.6084/m9.figshare.92668
  9. 9. https://www.flickr.com/photos/nhm_beetle_id/15930177695
  10. 10. Taxonomy
  11. 11. Names of animals must be: published
  12. 12. Names of animals must be: unique
  13. 13. Simples
  14. 14. Skull, mandible and tooth morphology of the holotype of L. melvillei MUSM 1676. O Lambert et al. Nature 466, 105-108 (2010) doi:10.1038/nature09067
  15. 15. Leviathan melvillei
  16. 16. Bugger…
  17. 17. Livyatan melvillei
  18. 18. Two kinds of #fail
  19. 19. We don’t have a list of all names
  20. 20. Publications containing names often not accessible
  21. 21. Leviathan melvillei
  22. 22. If it’s not online it doesn’t exist
  23. 23. @BioDivLibrary
  24. 24. 45 million pages, all Open Access
  25. 25. Problems with Biodiversity Heritage Library (BHL) • emphasises “old” stuff (pre-1923) • unit is scanned book, not scientific article https://c1.staticflickr.com/7/6162/6176297334_48b2dc550a_z.jpg
  26. 26. 100,000 articles from http://biostor.org (BHL) 1923 today
  27. 27. Numbers of new animal names 1923 WWI WWII
  28. 28. PMID:948206
  29. 29. http://biostor.org/reference/102054
  30. 30. http://data.gbif.org/occurrences/215921922/
  31. 31. BHL and GBIF as biomedical databases http://iphylo.blogspot.co.uk/2012/03/bhl-and-gbif-as-biomedical-databases.html
  32. 32. Biodiversity Knowledge Graph
  33. 33. MESH term
  34. 34. Impact of collection
  35. 35. In an attempt to live up to that increasing demand for documentation, the leadership of the Natural History Museum of Denmark has issued an order to its curatorial staff - The staff members are requested to document which publications from 2011, written entirely by external scientists, that in one way or another are based on material in the collections of the Museum. @TAXACOM http://markmail.org/message/opv2we7fkmro2nen
  36. 36. https://twitter.com/#!/search/10.1371%252Fjournal.pone.0036881
  37. 37. https://twitter.com/edwbaker/status /205595933159858176 https://twitter.com/edwbaker/status/205595933159858176
  38. 38. http://www.museum-analytics.org/
  39. 39. Cited, linkable specimens NMNH Vertebrate Zoology Herpetology Collections 11194 Herpetology Collection (University of Kansas Biodiversity Research Center) CAS Herpetology Collection Catalog MCZ Herpetology Collection 9619 6720 5818 http://iphylo.blogspot.co.uk/2012/02/gbif-specimens-in-biostor-who-are-top.html
  40. 40. https://www.flickr.com/photos/nhm_beetle_id/15930177695
  41. 41. How do we build this?

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