Social bookmarking   EMBL Centre for Computational Biology 30 th  of May, 2006 Michael Kuhn
briefly:  my motivation
one year of social bookmarking
before: over 100 bookmarks in browser
now: only 11  (my toolbar)
over 300 links in del.icio.us, organized with tags
concepts examples science 2.0 references
remember the Yahoo! catalog?
 
bookmarks: a similar hierarchy
 
taxonomy
 
 
taxonomy folks
tags
a tag is a keyword you assign intuitively
homo primate eukaryote vertebrate mammal Eukaryota  Metazoa   Chordata   Craniata   Vertebrata   Euteleostomi   Mammalia  ...
Comparison tagging is fast filing is slow can have many tags only one category intuitive description logical description d...
concepts examples science 2.0 references
 
 
analyze tags and cluster them
 
social bookmarking in academia
keywords are already there!
 
 
keywords are not in PubMed
instead: Medical Subject Headings (MeSH terms)
 
 
let readers describe the paper: tagging
 
 
managing your references: how does it work?
 
 
 
 
 
 
 
 
 
 
fully imports bibliographic data partially imports bibliographic data supports tag intersections API to access the data fr...
there are  many social bookmarking sites
 
social bookmarking and collaboration
 
 
 
summary of  this section
<ul><li>Social bookmarking: </li></ul><ul><li>…  helps you to manage and organize your references </li></ul><ul><li>…  let...
concepts examples science 2.0 references
you gain:  a fast way to  store and retrieve information
you get:  assistance in finding new papers
you profit: from the insight of other people
you give:  your bibliography  (your selection of publicly available information)
conflict between advancing knowledge and advancing your career
possible disadvantage: another scientist discovers an article earlier (or at all)
possible disadvantage: someone might deduce what you are working on
you have to decide if you want to contribute
(but I think it is worth it)
(also, you can keep your bookmarks private for some time in Connotea)
take-home message
<ul><li>With social bookmarking … </li></ul><ul><li>…  you can better keep track of your links and references </li></ul><u...
Next Tuesday: Stop emailing huge files: How to jointly  edit manuscripts  and share data
concepts examples science 2.0 references
<ul><li>About social bookmarking: </li></ul><ul><li>A two-part review and introduction:  http://www.dlib.org/dlib/april05/...
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Science and Web 2.0: Social Bookmarking (May 2006)

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Part of a <a href="http://van.embl.de/cb/web_20_talk_series.shtml">talk series at EMBL</a> in 2006 about Web 2.0 for Science. (<a href="http://van.embl.de/cb/multimedia/Web_2.0_talks/Web2.0_Talks_03-Tagging.avi">video of talk</a>)

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Science and Web 2.0: Social Bookmarking (May 2006)

  1. 1. Social bookmarking EMBL Centre for Computational Biology 30 th of May, 2006 Michael Kuhn
  2. 2. briefly: my motivation
  3. 3. one year of social bookmarking
  4. 4. before: over 100 bookmarks in browser
  5. 5. now: only 11 (my toolbar)
  6. 6. over 300 links in del.icio.us, organized with tags
  7. 7. concepts examples science 2.0 references
  8. 8. remember the Yahoo! catalog?
  9. 10. bookmarks: a similar hierarchy
  10. 12. taxonomy
  11. 15. taxonomy folks
  12. 16. tags
  13. 17. a tag is a keyword you assign intuitively
  14. 18. homo primate eukaryote vertebrate mammal Eukaryota Metazoa Chordata Craniata Vertebrata Euteleostomi Mammalia … Hominidae Homo Tags Hierarchy
  15. 19. Comparison tagging is fast filing is slow can have many tags only one category intuitive description logical description dynamic and created on the spot fixed framework, created beforehand Tags Hierarchy
  16. 20. concepts examples science 2.0 references
  17. 23. analyze tags and cluster them
  18. 25. social bookmarking in academia
  19. 26. keywords are already there!
  20. 29. keywords are not in PubMed
  21. 30. instead: Medical Subject Headings (MeSH terms)
  22. 33. let readers describe the paper: tagging
  23. 36. managing your references: how does it work?
  24. 47. fully imports bibliographic data partially imports bibliographic data supports tag intersections API to access the data from other tools can keep posts private (optional: until date) links and papers/books Nature Publishing Group no tag intersections, but can store PDFs no API yet all posts are public mainly papers/books one-man project Cite U Like
  25. 48. there are many social bookmarking sites
  26. 50. social bookmarking and collaboration
  27. 54. summary of this section
  28. 55. <ul><li>Social bookmarking: </li></ul><ul><li>… helps you to manage and organize your references </li></ul><ul><li>… lets you follow the references of people you know or trust </li></ul><ul><li>… generates recommendations of interesting references for you (but don’t expect wonders yet) </li></ul>
  29. 56. concepts examples science 2.0 references
  30. 57. you gain: a fast way to store and retrieve information
  31. 58. you get: assistance in finding new papers
  32. 59. you profit: from the insight of other people
  33. 60. you give: your bibliography (your selection of publicly available information)
  34. 61. conflict between advancing knowledge and advancing your career
  35. 62. possible disadvantage: another scientist discovers an article earlier (or at all)
  36. 63. possible disadvantage: someone might deduce what you are working on
  37. 64. you have to decide if you want to contribute
  38. 65. (but I think it is worth it)
  39. 66. (also, you can keep your bookmarks private for some time in Connotea)
  40. 67. take-home message
  41. 68. <ul><li>With social bookmarking … </li></ul><ul><li>… you can better keep track of your links and references </li></ul><ul><li>… you implicitly share knowledge with other scientists </li></ul>
  42. 69. Next Tuesday: Stop emailing huge files: How to jointly edit manuscripts and share data
  43. 70. concepts examples science 2.0 references
  44. 71. <ul><li>About social bookmarking: </li></ul><ul><li>A two-part review and introduction: http://www.dlib.org/dlib/april05/hammond/04hammond.html and http://www.dlib.org/dlib/april05/lund/04lund.html </li></ul><ul><li>Wikipedia articles: http://en.wikipedia.org/wiki/Social_bookmarking , http://en.wikipedia.org/wiki/Tags , http://en.wikipedia.org/wiki/Folksonomy </li></ul><ul><li>Scientific social bookmarking: </li></ul><ul><li>CiteULike: http://www. citeulike .org/ </li></ul><ul><li>Connotea: http://www. connotea .org/ </li></ul><ul><li>General social bookmarking services: </li></ul><ul><li>del.icio.us: http://del.icio.us </li></ul><ul><li>Flickr: http://www.flickr.com/ </li></ul><ul><li>(plus many others) </li></ul><ul><li>Other links: </li></ul><ul><li>NCBI taxonomy: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Taxonomy </li></ul><ul><li>Medical Subject Headings: http://www.nlm.nih.gov/mesh/ </li></ul>

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