Why aren’t we there yet? Rod Page
 
10 predictions
The Encyclopedia of Life will continue it's slow decline into irrelevance.  …Nobody will care, as we have Wikipedia. 1
Catalogue of Life will issue another release, complete with much fanfare. The LSIDs will continue to fail. …nobody will ca...
There will be much talk of integrating biodiversity data …nothing of significance in this area will happen. 3
For most young scientists GenBank will be the dominant source of information about biodiversity.  …if it hasn't been seque...
DNA barcoding by itself will become boring... 5
Literature that is not online will cease to be read.  Taxonomic groups where the literature is not online will effectively...
The major databases will continue to be riddled with errors …databases will make no (serious) effort to fix these 7
No major database effort will adopt wikis 8
Data providers such as Thomson Reuters (Index of Organism Names) will continue to clutch to debilitating notions of “intel...
The chasm between the classifications that underlie efforts such as EOL, and phylogenetic trees being generated by systema...
 
Nobody cares
<ul><li>Identifiers </li></ul><ul><li>Wikis </li></ul><ul><li>Literature </li></ul><ul><li>Data </li></ul>
 
Catalogue of Life will issue another release, complete with much fanfare. The LSIDs will continue to fail. …Nobody will ca...
urn:lsid:catalogueoflife.org:taxon:ecaa85e8-0cc1-11e0-9fbc-0ca92ce1e3cc:col20101221 <rdf:RDF xmlns:rdf=&quot;http://www.w3...
Digital Object Identifier (DOI)
Why have DOIs?
Link rot
Refs
 
 
Benefits of DOIs <ul><li>Stable, reusable identifiers </li></ul><ul><li>Minimal branding </li></ul><ul><li>Someone to comp...
users WTF?
 
Wikis
The major databases will continue to be riddled with errors …databases will make no (serious) effort to fix these 7
No major database effort will adopt wikis 8
Why take wikis seriously?
Wikipedia takes the scientific literature seriously
Finn Årup Nielsen  (arXiv:0705.2106v1) Australian Systematic Botany Nature Science
Linked data (The future of the web, and always will be…)
 
http://www.bbc.co.uk/nature/species/Komodo_dragon
Other fields use Wikipedia
GeneWiki Huss et al.  2008 doi:10.1371/journal.pbio.0060175
Google search on gene names Huss et al.  2008 doi:10.1371/journal.pbio.0060175
 
Caveats
Authorship
Versions 1 2 3 4 History flow
Afrotheria
Controversy
 
Physeter catodon Physeter macrocephalus
 
We should follow MSW3, as it is what is used in nearly all other mammal articles on Wikipedia. UtherSRG (talk)
Nope. The MSW3 is in error in this case. It will stay as  macrocephalus . Tag! You're it. Jonas Poole (talk)
Please stop. MSW3 is the defacto standard used in the majority of mammal articles … so MSW3 stands. - UtherSRG (talk)
So, basically its your fucking bible? Well, I'm a man of little faith. I'll be reverting it back. You, my friend, may stop...
Yes, contradiction, because I *had* listed  macrocephalus  as a synonym. … So, since you say that that is acceptable, I'll...
That's not what I said you fucking piece of shit. I'm reverting it back to  macrocephalus  asshole. Damn you fucking cunt....
Wow. Seriously consider taking a Wikivacation to cool off, man. Your heat is way above this conflict. - UtherSRG (talk)
WikiLinks
http://ispecies.org Text Genomics Map Images Literature Isthmohyla rivularis is a rare species of frog in the Hylidae fami...
 
 
http://iphylo.org/linkout
NCBI Wikipedia NCBI Wikipedia NCBI Wikipedia exact synonym redirect exact exact
53,000
 
ray2
53,000 ?
Against Guidelines Unfortunately the newbie  User:Rdmpage  suggested something, that is against guidelines ... Enforce som...
I love Wikipedia…
… Wikipedia doesn’t love me.
http://iphylo.org/linkout
 
Literature that is not online will cease to be read.  Taxonomic groups where the literature is not online will effectively...
Taxonomic exceptionalism
 
Ann. Mag. nat. Hist., (4) 19, 147 “microcitations”
 
Ann. Mag. nat. Hist., (4) 19, 147. Descriptions of new genera and species of New-Zealand Coleoptera - Part IV  by F P Pasc...
Bibliography of Life
www.mendeley.com
 
 
 
BHL Europe
 
Information wants to be free.
Information wants to be expensive.
Data providers such as Thomson Reuters (Index of Organism Names) will continue to clutch to debilitating notions of “intel...
www.theplantlist.org
You may not alter, transform, or build upon this work
iphylo.org/~rpage/theplantlist
taxonomist users
taxonomist users
taxonomist users
taxonomist users
taxonomist users
taxonomist users
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Why aren't we there yet?

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  • http://upload.wikimedia.org/wikipedia/commons/e/ed/10_sharing_book_cover.pdf
  • http://chrisabraham.com/2008/07/06/wikipedia-is-accurate-citation-needed/
  • http://chrisabraham.com/2008/07/06/wikipedia-is-accurate-citation-needed/
  • Shttp://www2.imm.dtu.dk/~fn/twod/FinnAarupNielsen2007Jorck2_manipulated_bw.jpgenior researcher at DTU Informatics specializing in neuroinformatics for functional neuroimaging
  • Linked Data, note centrality of DBpedia
  • Identifier reuse and scoping a project by BBC, note use of Wikipedia “slug” in URL
  • http://chrisabraham.com/2008/07/06/wikipedia-is-accurate-citation-needed/
  • For the species in Wikipedia I asked what web site comes top of the Google search for that name. Wikipedia dominates the search ranking. There really is only one game in town. 70,000 species
  • History flow visualisation, after Jeff Atwood’s animated GIF
  • Afrotheria
  • ) 04:59, 3 October 2008 (UTC)
  • ) 04:59, 3 October 2008 (UTC)
  • 22:52, 3 October 2008 (UTC)
  • 04:33, 5 October 2008 (UTC)
  • 22:16, 5 October 2008 (UTC)
  • 05:11, 7 October 2008 (UTC)
  • 02:26, 8 October 2008 (UTC)
  • 06:14, 10 October 2008 (UTC)
  • http://twitter.com/#!/pentcheff/status/11118989946130432
  • Stewart Brand (image from Wikipedia)
  • Why aren't we there yet?

    1. 1. Why aren’t we there yet? Rod Page
    2. 3. 10 predictions
    3. 4. The Encyclopedia of Life will continue it's slow decline into irrelevance. …Nobody will care, as we have Wikipedia. 1
    4. 5. Catalogue of Life will issue another release, complete with much fanfare. The LSIDs will continue to fail. …nobody will care. 2
    5. 6. There will be much talk of integrating biodiversity data …nothing of significance in this area will happen. 3
    6. 7. For most young scientists GenBank will be the dominant source of information about biodiversity. …if it hasn't been sequenced, they won't care about it. 4
    7. 8. DNA barcoding by itself will become boring... 5
    8. 9. Literature that is not online will cease to be read. Taxonomic groups where the literature is not online will effectively cease to be studied. 6
    9. 10. The major databases will continue to be riddled with errors …databases will make no (serious) effort to fix these 7
    10. 11. No major database effort will adopt wikis 8
    11. 12. Data providers such as Thomson Reuters (Index of Organism Names) will continue to clutch to debilitating notions of “intellectual property” 9
    12. 13. The chasm between the classifications that underlie efforts such as EOL, and phylogenetic trees being generated by systematists will grow. …Neither community will care. 10
    13. 15. Nobody cares
    14. 16. <ul><li>Identifiers </li></ul><ul><li>Wikis </li></ul><ul><li>Literature </li></ul><ul><li>Data </li></ul>
    15. 18. Catalogue of Life will issue another release, complete with much fanfare. The LSIDs will continue to fail. …Nobody will care. 2
    16. 19. urn:lsid:catalogueoflife.org:taxon:ecaa85e8-0cc1-11e0-9fbc-0ca92ce1e3cc:col20101221 <rdf:RDF xmlns:rdf=&quot;http://www.w3.org/1999/02/22-rdf-syntax-ns#&quot;xmlns:TaxonName=&quot;http://rs.tdwg.org/ontology/voc/TaxonName#&quot;xmlns:TaxonRank=&quot;http://rs.tdwg.org/ontology/voc/TaxonRank#&quot;xmlns:PublicationCitation=&quot;http://rs.tdwg.org/ontology/voc/PublicationCitation#&quot;xmlns:Common=&quot;http://rs.tdwg.org/ontology/voc/Common#&quot;xmlns:Collection=&quot;http://rs.tdwg.org/ontology/voc/Collection#&quot;xmlns:Institution=&quot;http://rs.tdwg.org/ontology/voc/Institution#&quot;xmlns:dc=&quot;http://purl.org/dc/elements/1.1/&quot;xmlns:TaxonConcept=&quot;http://rs.tdwg.org/ontology/voc/TaxonConcept#&quot;> </rdf:RDF>
    17. 20. Digital Object Identifier (DOI)
    18. 21. Why have DOIs?
    19. 22. Link rot
    20. 23. Refs
    21. 26. Benefits of DOIs <ul><li>Stable, reusable identifiers </li></ul><ul><li>Minimal branding </li></ul><ul><li>Someone to complain to if a DOI breaks </li></ul><ul><li>Metadata about what DOI identifies </li></ul><ul><li>Find DOI for object </li></ul><ul><li>Links between DOIs (= citation) </li></ul>
    22. 27. users WTF?
    23. 29. Wikis
    24. 30. The major databases will continue to be riddled with errors …databases will make no (serious) effort to fix these 7
    25. 31. No major database effort will adopt wikis 8
    26. 32. Why take wikis seriously?
    27. 33. Wikipedia takes the scientific literature seriously
    28. 34. Finn Årup Nielsen (arXiv:0705.2106v1) Australian Systematic Botany Nature Science
    29. 35. Linked data (The future of the web, and always will be…)
    30. 37. http://www.bbc.co.uk/nature/species/Komodo_dragon
    31. 38. Other fields use Wikipedia
    32. 39. GeneWiki Huss et al. 2008 doi:10.1371/journal.pbio.0060175
    33. 40. Google search on gene names Huss et al. 2008 doi:10.1371/journal.pbio.0060175
    34. 42. Caveats
    35. 43. Authorship
    36. 44. Versions 1 2 3 4 History flow
    37. 45. Afrotheria
    38. 46. Controversy
    39. 48. Physeter catodon Physeter macrocephalus
    40. 50. We should follow MSW3, as it is what is used in nearly all other mammal articles on Wikipedia. UtherSRG (talk)
    41. 51. Nope. The MSW3 is in error in this case. It will stay as macrocephalus . Tag! You're it. Jonas Poole (talk)
    42. 52. Please stop. MSW3 is the defacto standard used in the majority of mammal articles … so MSW3 stands. - UtherSRG (talk)
    43. 53. So, basically its your fucking bible? Well, I'm a man of little faith. I'll be reverting it back. You, my friend, may stop reverting it. It's quite annoying. Jonas Poole (talk)
    44. 54. Yes, contradiction, because I *had* listed macrocephalus as a synonym. … So, since you say that that is acceptable, I'll restore it to be that way. - UtherSRG (talk)
    45. 55. That's not what I said you fucking piece of shit. I'm reverting it back to macrocephalus asshole. Damn you fucking cunt. Jonas Poole (talk)
    46. 56. Wow. Seriously consider taking a Wikivacation to cool off, man. Your heat is way above this conflict. - UtherSRG (talk)
    47. 57. WikiLinks
    48. 58. http://ispecies.org Text Genomics Map Images Literature Isthmohyla rivularis is a rare species of frog in the Hylidae family. It is found on along fast-moving, clear streams of the lower and pre-montane rainforest slopes in Costa Rica and western Panama, from . It is threatened by habitat loss. The species was thought to have become extinct in the late 1980s. In 2007, it was re-discovered in the Monteverde Cloud Forest of Costa Rica, and a female was spotted in 2008.http://news.bbc.co.uk/2/hi/science/nature/7609780.stm ...
    49. 61. http://iphylo.org/linkout
    50. 62. NCBI Wikipedia NCBI Wikipedia NCBI Wikipedia exact synonym redirect exact exact
    51. 63. 53,000
    52. 65. ray2
    53. 66. 53,000 ?
    54. 67. Against Guidelines Unfortunately the newbie User:Rdmpage suggested something, that is against guidelines ... Enforce something against guidelines has no chance. Guidelines are long term used standards, that we all should respect.
    55. 68. I love Wikipedia…
    56. 69. … Wikipedia doesn’t love me.
    57. 70. http://iphylo.org/linkout
    58. 72. Literature that is not online will cease to be read. Taxonomic groups where the literature is not online will effectively cease to be studied. 6
    59. 73. Taxonomic exceptionalism
    60. 75. Ann. Mag. nat. Hist., (4) 19, 147 “microcitations”
    61. 77. Ann. Mag. nat. Hist., (4) 19, 147. Descriptions of new genera and species of New-Zealand Coleoptera - Part IV by F P Pascoe Annals and Magazine of Natural History (4) 19: 140-147 (1877)
    62. 78. Bibliography of Life
    63. 79. www.mendeley.com
    64. 83. BHL Europe
    65. 85. Information wants to be free.
    66. 86. Information wants to be expensive.
    67. 87. Data providers such as Thomson Reuters (Index of Organism Names) will continue to clutch to debilitating notions of “intellectual property” 9
    68. 88. www.theplantlist.org
    69. 89. You may not alter, transform, or build upon this work
    70. 90. iphylo.org/~rpage/theplantlist
    71. 91. taxonomist users
    72. 92. taxonomist users
    73. 93. taxonomist users
    74. 94. taxonomist users
    75. 95. taxonomist users
    76. 96. taxonomist users
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