Something about links

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Talk ontaxonomy, identifiers, and links given at pro-iBiosphere meeting, Leiden, 13 February 2013

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Something about links

  1. 1. @rdmpage http://iphylo.blogspot.comWhy the semantic web is more than PDFThe semantic web and taxonomySurfacing the deep data of taxonomySomething about links
  2. 2. @mycokeys10.3897/mycokeys.5.4302
  3. 3. Where are:• The users?• The questions?• The science?
  4. 4. Phylogeography
  5. 5. Taxonomy
  6. 6. Our questions span multiple databases (“paths” in network)
  7. 7. Specimens and diseases
  8. 8. PMID:948206
  9. 9. http://biostor.org/reference/102054
  10. 10. http://data.gbif.org/occurrences/215921922/
  11. 11. BHL and GBIF as biomedical databaseshttp://iphylo.blogspot.co.uk/2012/03/bhl-and-gbif-as-biomedical-databases.html
  12. 12. Metrics
  13. 13. In an attempt to live up to that increasingdemand for documentation, the leadership ofthe Natural History Museum of Denmark hasissued an order to its curatorial staff - Thestaff members are requested to documentwhich publications from 2011, writtenentirely by external scientists, that in one wayor another are based on material in thecollections of the Museum. @TAXACOM http://markmail.org/message/opv2we7fkmro2nen
  14. 14. https://twitter.com/#!/search/10.1371%252Fjournal.pone.0036881
  15. 15. https://twitter.com/edwbaker/status /205595933159858176https://twitter.com/edwbaker/status/205595933159858176
  16. 16. http://www.museum-analytics.org/
  17. 17. Impact ofcollection
  18. 18. Cited, linkable specimens NMNH Vertebrate Zoology 11194 Herpetology Collections Herpetology Collection (University of Kansas Biodiversity Research 9619 Center) CAS Herpetology Collection Catalog 6720 MCZ Herpetology Collection 5818http://iphylo.blogspot.co.uk/2012/02/gbif-specimens-in-biostor-who-are-top.html
  19. 19. The story of the web (it’s all about links)
  20. 20. http://… http://…
  21. 21. http://… http://… link ,
  22. 22. http://… http://… http://…
  23. 23. http://… http://…person book is a author of Fred http://…
  24. 24. The Semantic web: “The future of the web …and always will be” – Peter Norvig (Google)
  25. 25. http://… http://…person book is a author of Fred http://…
  26. 26. http://… http://… http://…
  27. 27. Without links we will #fail to deliver the cool stuff
  28. 28. http://… http://… link ,
  29. 29. Links = pairs of identifiers
  30. 30. Problem:nobody sees value in the links
  31. 31. @mycokeys10.3897/mycokeys.5.4302
  32. 32. Publishers Museums Genomics
  33. 33. Question 1:When will we value links enough to create and maintain them?
  34. 34. #@$! GBIF keeps changing URLs! http://iphylo.blogspot.co.uk/2012/07/dear-gbif-please-stop-changing.html
  35. 35. Citation network = valuable links
  36. 36. Question 2:How do we link in the absence of identifiers?
  37. 37. When shall we link?http://go-to-hellman.blogspot.co.uk/2010/04/when-shall-we-link.html
  38. 38. When shall we link?• Just in case (hard coded) – Identifiers – e.g., DOIs• Just in time (link when needed) – Instructions to make link – OpenURL
  39. 39. Just in case doi:10.1186/1471-2105-12-187Just in time ?journal=BMC Bioinformatics &volume=12&spage=187
  40. 40. The challenge:How do we make persistent links in the absence of persistent identifiers?

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