Science and the Commons

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Slides presented at the Kansas University Medical Center, 15 Sept 2009

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Science and the Commons

  1. 1. 1. scholarly publishing: change is coming, like it or not. Tuesday, September 15, 2009
  2. 2. when you make people more relevant than content containers, content industries get disrupted. Tuesday, September 15, 2009
  3. 3. Tuesday, September 15, 2009
  4. 4. media company response: adjust the physical media force the cd format ignore that people... like to make mixes. Tuesday, September 15, 2009
  5. 5. http://www.flickr.com/photos/diemer/ cc-by-sa Tuesday, September 15, 2009
  6. 6. now a *computer* company dominates the music industry. Tuesday, September 15, 2009
  7. 7. and it’s a control culture. an “app store approval” culture. Tuesday, September 15, 2009
  8. 8. science “knowledge” Tuesday, September 15, 2009
  9. 9. Tuesday, September 15, 2009
  10. 10. Tuesday, September 15, 2009
  11. 11. Tuesday, September 15, 2009
  12. 12. Tuesday, September 15, 2009
  13. 13. Tuesday, September 15, 2009
  14. 14. containers grow, and we ignore the radical shift. Tuesday, September 15, 2009
  15. 15. Tuesday, September 15, 2009
  16. 16. “article of the future” Tuesday, September 15, 2009
  17. 17. the “container” is still the “paper” Tuesday, September 15, 2009
  18. 18. the “container” is still the “paper” Tuesday, September 15, 2009
  19. 19. the “article of the future” is not an article. Tuesday, September 15, 2009
  20. 20. <people><acquire><leptospira> <people><reside in><floodzones> (computers love this stuff. people, not so much.) Tuesday, September 15, 2009
  21. 21. @prefix skos: <http://www.w3.org/2004/02/skos/core#> . @prefix sc: <http://purl.org/science/owl/sciencecommons/> . @prefix m: <http://purl.org/commons/record/mesh/> . m:D000001Q00000 skos:broader m:D00000 . m:D000001Q00000 sc:is_qualified_by m:Q00000 . m:D000001Q00000 skos:prefLabel "Calcimycin - administration dosage". m:D000001Q00000 skos:broader m:D00000 . m:D000001Q00000 sc:is_qualified_by m:Q00000 . m:D000001Q00000 skos:prefLabel "Calcimycin - adverse effects". m:D000001Q00003 skos:broader m:D00000 . m:D000001Q00003 sc:is_qualified_by m:Q00003 . m:D000001Q00003 skos:prefLabel "Calcimycin - analogs derivatives". m:D000001Q00003 skos:broader m:D00000 . m:D000001Q00003 sc:is_qualified_by m:Q00003 . m:D000001Q00003 skos:prefLabel "Calcimycin - analysis". m:D000001Q00003 skos:broader m:D00000 . m:D000001Q00003 sc:is_qualified_by m:Q00003 . m:D000001Q00003 skos:prefLabel "Calcimycin - antagonists inhibitors". m:D000001Q00009 skos:broader m:D00000 . m:D000001Q00009 sc:is_qualified_by m:Q00009 . Tuesday, September 15, 2009
  22. 22. publishing tradition: registration certification dissemination preservation Tuesday, September 15, 2009
  23. 23. publishing tradition: registration certification dissemination preservation Tuesday, September 15, 2009
  24. 24. Tuesday, September 15, 2009
  25. 25. registration certification dissemination preservation Tuesday, September 15, 2009
  26. 26. Tuesday, September 15, 2009
  27. 27. registration certification dissemination preservation Tuesday, September 15, 2009
  28. 28. Tuesday, September 15, 2009
  29. 29. registration certification dissemination preservation Tuesday, September 15, 2009
  30. 30. Tuesday, September 15, 2009
  31. 31. so what’s left for publishers? Tuesday, September 15, 2009
  32. 32. when a layer gets commoditized, value can be created in adjacent layers. (clayton christensen) Tuesday, September 15, 2009
  33. 33. when a layer gets commoditized, value can be created in adjacent layers. (clayton christensen) (hint: networks make copies of content into commodities) Tuesday, September 15, 2009
  34. 34. integration annotation federation Tuesday, September 15, 2009
  35. 35. integration annotation federation Tuesday, September 15, 2009
  36. 36. Tuesday, September 15, 2009
  37. 37. integration annotation federation Tuesday, September 15, 2009
  38. 38. Tuesday, September 15, 2009
  39. 39. espresso coffee cafe kopi cafezinho latte koffee mocha americano Tuesday, September 15, 2009
  40. 40. integration annotation federation Tuesday, September 15, 2009
  41. 41. Tuesday, September 15, 2009
  42. 42. Tuesday, September 15, 2009
  43. 43. content services are much more valuable when the content itself becomes a commodity. but if your focus is on preventing copying, you’ll miss the shift. Tuesday, September 15, 2009
  44. 44. exponential content growth Tuesday, September 15, 2009
  45. 45. our brain capacity 1.00 0.75 0.50 0.25 0 1990 1994 1998 2002 Tuesday, September 15, 2009
  46. 46. “...we don’t ask what the incentive is for the electrons to leave home. we say that the current results from an emergent property of the system, which we call induction.” eben moglen Tuesday, September 15, 2009
  47. 47. “...we don’t ask what the incentive is for the electrons to leave home. we say that the current results from an emergent property of the system, which we call induction.” The question we ask is ‘what’s the resistance of the wire?’ eben moglen Tuesday, September 15, 2009
  48. 48. Tuesday, September 15, 2009
  49. 49. ignoring the law does not scale. Tuesday, September 15, 2009
  50. 50. computers tcp/ip documents html/http knowledge commons Tuesday, September 15, 2009
  51. 51. Tuesday, September 15, 2009
  52. 52. Tuesday, September 15, 2009
  53. 53. Tuesday, September 15, 2009
  54. 54. Tuesday, September 15, 2009
  55. 55. Tuesday, September 15, 2009
  56. 56. image from the public library of science licensed to the public under cc-by-3.0 Tuesday, September 15, 2009
  57. 57. 2. there is real tension between interoperability and choice, and in science, we need interoperability more. Tuesday, September 15, 2009
  58. 58. cc for oa? good. Tuesday, September 15, 2009
  59. 59. cc for oa? good. but... Tuesday, September 15, 2009
  60. 60. Tuesday, September 15, 2009
  61. 61. Tuesday, September 15, 2009
  62. 62. attribution Tuesday, September 15, 2009
  63. 63. © in relation to data... Tuesday, September 15, 2009
  64. 64. category errors Tuesday, September 15, 2009
  65. 65. is it creative? Tuesday, September 15, 2009
  66. 66. is it creative? Tuesday, September 15, 2009
  67. 67. is it creative? Tuesday, September 15, 2009
  68. 68. the problem of... Non-Commercial for data Tuesday, September 15, 2009
  69. 69. Non-Commercial what’s a commercial use of the data web? Tuesday, September 15, 2009
  70. 70. the problem of... Share Alike for data Tuesday, September 15, 2009
  71. 71. Tuesday, September 15, 2009
  72. 72. the problem of... Attribution for data Tuesday, September 15, 2009
  73. 73. Tuesday, September 15, 2009
  74. 74. Tuesday, September 15, 2009
  75. 75. the problem of... any license for data Tuesday, September 15, 2009
  76. 76. if property is the accepted metaphor, all of these terms will eventually appear. Tuesday, September 15, 2009
  77. 77. uses triggered by “making a copy” Tuesday, September 15, 2009
  78. 78. unmet expectations Tuesday, September 15, 2009
  79. 79. attribution = license citation = norms Tuesday, September 15, 2009
  80. 80. attribution = license citation = norms (which one applies whether or not a copy is made?) Tuesday, September 15, 2009
  81. 81. Tuesday, September 15, 2009
  82. 82. Tuesday, September 15, 2009
  83. 83. waive all rights necessary for data extraction and re-use no obligations (share-alike, contract) to limit downstream use request behavior (citation) through norms Tuesday, September 15, 2009
  84. 84. Tuesday, September 15, 2009
  85. 85. interoperability... Tuesday, September 15, 2009
  86. 86. 3. value of legally interoperable data depends on technical interoperability, too. Tuesday, September 15, 2009
  87. 87. Tuesday, September 15, 2009
  88. 88. Tuesday, September 15, 2009
  89. 89. coffee Tuesday, September 15, 2009
  90. 90. coffee cafe Tuesday, September 15, 2009
  91. 91. coffee cafe kopi Tuesday, September 15, 2009
  92. 92. coffee cafe kopi cafezinho Tuesday, September 15, 2009
  93. 93. coffee cafe kopi cafezinho koffee Tuesday, September 15, 2009
  94. 94. espresso coffee cafe kopi cafezinho koffee Tuesday, September 15, 2009
  95. 95. espresso coffee cafe kopi cafezinho latte koffee Tuesday, September 15, 2009
  96. 96. espresso coffee cafe kopi cafezinho latte koffee mocha Tuesday, September 15, 2009
  97. 97. espresso coffee cafe kopi cafezinho latte koffee mocha americano Tuesday, September 15, 2009
  98. 98. converge on common names. “coffee” “cafe” coffee http://ontology.foo.org/1234567 “kopi” Tuesday, September 15, 2009
  99. 99. Tuesday, September 15, 2009
  100. 100. 103 databases - just molecular biology Tuesday, September 15, 2009
  101. 101. Tuesday, September 15, 2009
  102. 102. “read 89,00 papers” is not the ideal answer. Tuesday, September 15, 2009
  103. 103. better answers through better formats: Mesh: yramidal eurons select ?gene_name ?process_name where Pubmed: ournal rticles { PropertyValue(?pubmed_record, ?p, mesh:D017966) PropertyValue(?article, sc:identified_by_pmid , ?pubmed_record) PropertyValue(?gene_record, sc:describes_gene_or_gene_product_mentioned_by, ?article) SubClassOf(?protein, some(ro:has_function, some(ro:realized_as, ?process))) SubClassOf(?process, or(go:GO_0007166, some(ro:part_of, go:GO_0007166)) Entrez ene: enes SubClassOf(?protein, some(sc:is_protein_gene_product_of_dna_described_by,?gene_record)) Annotation(?gene_record,rdfs:label,{?gene_name}) Annotation(?process,rdfs:label,?process_name) } GO: ignal ransduction Tuesday, September 15, 2009
  104. 104. DRD1, 1812 adenylate cyclase activation ADRB2, 154 adenylate cyclase activation ADRB2, 154 arrestin mediated desensitization of G-protein coupled receptor protein signaling pathway DRD1IP, 50632 dopamine receptor signaling pathway DRD1, 1812 dopamine receptor, adenylate cyclase activating pathway DRD2, 1813 dopamine receptor, adenylate cyclase inhibiting pathway GRM7, 2917 G-protein coupled receptor protein signaling pathway GNG3, 2785 G-protein coupled receptor protein signaling pathway GNG12, 55970 G-protein coupled receptor protein signaling pathway DRD2, 1813 G-protein coupled receptor protein signaling pathway ADRB2, 154 G-protein coupled receptor protein signaling pathway CALM3, 808 G-protein coupled receptor protein signaling pathway HTR2A, 3356 G-protein coupled receptor protein signaling pathway DRD1, 1812 G-protein signaling, coupled to cyclic nucleotide second messenger SSTR5, 6755 G-protein signaling, coupled to cyclic nucleotide second messenger MTNR1A, 4543 G-protein signaling, coupled to cyclic nucleotide second messenger CNR2, 1269 G-protein signaling, coupled to cyclic nucleotide second messenger HTR6, 3362 G-protein signaling, coupled to cyclic nucleotide second messenger GRIK2, 2898 glutamate signaling pathway GRIN1, 2902 glutamate signaling pathway GRIN2A, 2903 glutamate signaling pathway GRIN2B, 2904 glutamate signaling pathway ADAM10, 102 integrin-mediated signaling pathway GRM7, 2917 negative regulation of adenylate cyclase activity LRP1, 4035 negative regulation of Wnt receptor signaling pathway ADAM10, 102 Notch receptor processing ASCL1, 429 Notch signaling pathway HTR2A, 3356 serotonin receptor signaling pathway ADRB2, 154 transmembrane receptor protein tyrosine kinase activation (dimerization) PTPRG, 5793 transmembrane receptor protein tyrosine kinase signaling pathway EPHA4, 2043 transmembrane receptor protein tyrosine kinase signaling pathway NRTN, 4902 transmembrane receptor protein tyrosine kinase signaling pathway CTNND1, 1500 Wnt receptor signaling pathway ` Tuesday, September 15, 2009
  105. 105. turn ugly query code into a link http://hcls1.csail.mit.edu:8890/sparql/?query=prefix%20go%3A%20%3Chttp%3A%2F%2Fpurl.org%2Fobo%2Fowl%2FGO%23%3E %0Aprefix%20rdfs%3A%20%3Chttp%3A%2F%2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0Aprefix%20owl%3A %20%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0Aprefix%20mesh%3A%20%3Chttp%3A%2F%2Fpurl.org %2Fcommons%2Frecord%2Fmesh%2F%3E%0Aprefix%20sc%3A%20%3Chttp%3A%2F%2Fpurl.org%2Fscience%2Fowl %2Fsciencecommons%2F%3E%0Aprefix%20ro%3A%20%3Chttp%3A%2F%2Fwww.obofoundry.org%2Fro%2Fro.owl%23%3E%0A %0Aselect%20%3Fgenename%20%3Fprocessname%0Awhere%0A%7B%20%20graph%20%3Chttp%3A%2F%2Fpurl.org %2Fcommons%2Fhcls%2Fpubmesh%3E%0A%20%20%20%20%20%7B%20%3Fpaper%20%3Fp%20mesh%3AD017966%20.%0A %20%20%20%20%20%20%20%3Farticle%20sc%3Aidentified_by_pmid%20%3Fpaper.%0A%20%20%20%20%20%20%20%3Fgene %20sc%3Adescribes_gene_or_gene_product_mentioned_by%20%3Farticle.%0A%20%20%20%20%20%7D%0A%20%20%20graph %20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2Fgoa%3E%0A%20%20%20%20%20%7B%20%3Fprotein%20rdfs %3AsubClassOf%20%3Fres.%0A%20%20%20%20%20%20%20%3Fres%20owl%3AonProperty%20ro%3Ahas_function.%0A %20%20%20%20%20%20%20%3Fres%20owl%3AsomeValuesFrom%20%3Fres2.%0A %20%20%20%20%20%20%20%3Fres2%20owl%3AonProperty%20ro%3Arealized_as.%0A %20%20%20%20%20%20%20%3Fres2%20owl%3AsomeValuesFrom%20%3Fprocess.%0A%20%20%20graph%20%3Chttp%3A%2F %2Fpurl.org%2Fcommons%2Fhcls%2F20070416%2Fclassrelations%3E%0A%20%20%20%20%20%7B%7B%3Fprocess%20%3Chttp %3A%2F%2Fpurl.org%2Fobo%2Fowl%2Fobo%23part_of%3E%20go%3AGO_0007166%7D%0A%20%20%20%20%20%20%20union %0A%20%20%20%20%20%20%7B%3Fprocess%20rdfs%3AsubClassOf%20go%3AGO_0007166%20%7D%7D%0A %20%20%20%20%20%20%20%3Fprotein%20rdfs%3AsubClassOf%20%3Fparent.%0A%20%20%20%20%20%20%20%3Fparent %20owl%3AequivalentClass%20%3Fres3.%0A%20%20%20%20%20%20%20%3Fres3%20owl%3AhasValue%20%3Fgene.%0A %20%20%20%20%20%20%7D%0A%20%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2Fgene%3E%0A %20%20%20%20%20%7B%20%3Fgene%20rdfs%3Alabel%20%3Fgenename%20%7D%0A%20%20%20graph%20%3Chttp%3A %2F%2Fpurl.org%2Fcommons%2Fhcls%2F20070416%3E%0A%20%20%20%20%20%7B%20%3Fprocess%20rdfs%3Alabel %20%3Fprocessname%7D%0A%7D&format=&maxrows=50 Tuesday, September 15, 2009
  106. 106. Tuesday, September 15, 2009
  107. 107. Tuesday, September 15, 2009
  108. 108. Tuesday, September 15, 2009
  109. 109. Tuesday, September 15, 2009
  110. 110. 4. the commons, like the internet, changes the physical world, not just the digital one. Tuesday, September 15, 2009
  111. 111. Tuesday, September 15, 2009
  112. 112. Tuesday, September 15, 2009
  113. 113. stem cells Tuesday, September 15, 2009
  114. 114. non-digital. Tuesday, September 15, 2009
  115. 115. Tuesday, September 15, 2009
  116. 116. “start by melting iron ore...” Tuesday, September 15, 2009
  117. 117. Tuesday, September 15, 2009
  118. 118. Tuesday, September 15, 2009
  119. 119. change. whether we like it or not. Tuesday, September 15, 2009
  120. 120. Tuesday, September 15, 2009 interoperability...
  121. 121. Tuesday, September 15, 2009
  122. 122. Tuesday, September 15, 2009
  123. 123. two futures. Tuesday, September 15, 2009
  124. 124. Tuesday, September 15, 2009
  125. 125. c: Tuesday, September 15, 2009
  126. 126. the digital commons... Tuesday, September 15, 2009
  127. 127. Tuesday, September 15, 2009
  128. 128. the right to create. Tuesday, September 15, 2009
  129. 129. law + technology + content + community Tuesday, September 15, 2009
  130. 130. at best, we’re partially right. Tuesday, September 15, 2009
  131. 131. at best, we’re partially right. at worst, we’re really wrong. Tuesday, September 15, 2009
  132. 132. Tuesday, September 15, 2009
  133. 133. the right to fix our mistakes. Tuesday, September 15, 2009
  134. 134. “ propose the seeming paradox that in science, private property is established by having its substance freely given to others…” Merton Tuesday, September 15, 2009
  135. 135. thank you John . and atherine . acArthur oundation Ewing arion auffman oundation CHD oundation Omidyar etwork Nike, nc. Tuesday, September 15, 2009

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