0
ESIP semi-annual meeting
          washington, dc
          6 january 2009

            john wilbanks
creative commons / s...
metcalfe’s law
“information wants to be free”
“if free, and technically enabled,
    information trends towards
connectivity and increased value”
information   knowledge?
digitization changes knowledge

journals, databases, ontologies, wikis, annotations...
why no disruptions like Metcalfe’s
      Law for knowledge?
disruptive processes can’t be
     planned in advance.
disruptive processes can’t be
      planned in advance.

planned innovation tends to be
    incremental, and slow.
disruptive processes can’t be
      planned in advance.

planned innovation tends to be
    incremental, and slow.

     ....
1.
stable systems are resistant to change on
              multiple levels.
©
creative expression
the container, not the facts.
the container, not the facts.

      © locks the container.
but
IGFBP-5 plays a role in the
regulation of cellular senescence
via a p53-dependent pathway
and in aging-associated
vascular...
IGFBP-5 plays a role in the
regulation of cellular senescence
via a p53-dependent pathway
and in aging-associated
vascular...
indexing: disallowed.




 http://orpheus-1.ucsd.edu/acq/license/cdlelsevier2004.pdf
creative
 work?
40 minutes per year
nih policy.
Dorothea Salo, http://cavlec.yarinareth.net/2008/10/31/miniature-disasters-and-minor-catastrophes/
the existing system is robust against
              disruption



the existing system is robust against
              disr...
this is how evolved systems resist change:
 at multiple levels, with multiple fail-safes.
2.
the “digital commons” presents us with a
             potential way out.
“the commons”
rivalrous
      v.
non-rivalrous
small contributions.
snap-together licensing.
  technically enabled.
“the commons”
“intellectual property”
knowledge rights
copyright
most
uses
free
most
regulated uses
 commercial
couldn’t
legally control
   perfectly
copyright
regulates
“copies”
in digital world
every use
   =
 “copy”
thus, presumption:
    every use
      requires
   permission
Copyright
All Rights
Reserved



                         No Rights
                         Reserved
Copyright
All Rights
Reserved



                         No Rights
                         Reserved
licensing
step 1: choose conditions


  Attribution               Share Alike



  Non-Commercial            No Derivative...
Ported to 50
Jurisdictions
160M
160M
solves the legal problem
but not the container
      problem.
over 200
   years at
one paper/day
what you want is
    a list of genes.

not a list of documents.
building a web for data:
  the “semantic web”
databases as unique entities,
instead of nodes in a network
“packages”
scalable aggregation
not-software
  scalable
  modular
lots of people
  open licenses
community norms
3.
reports from the front lines: building a
  commons is really, really hard.
whichever we choose, we need some way
  for computers to help us theorize, and to
leverage the work of others (either to b...
exponential content growth
our brain capacity


5.00



3.75



2.50



1.25



  0
   1990   1994                    1998   2002
but if we can work together...
open copyright, balanced incentives, and
        distributed workloads
Open Access Content
c
>1000 journals under CC

  image from the public library of science
  licensed to the public under CC-BY 3.0
running policy code
    (w. SPARC)
+        +         +




    is it legal?
+                  +




+        +         +
conflicts with the protection instinct
conflicts with the protection instinct

the protection instinct is sometimes an instinct to
                protect “freedo...
http://visibleearth.nasa.gov/
Open Source
Data Integration
a repository of ontologies,
namespaces, and integrated
         databases.
e pluribus unum.
we can transform complex queries into links


                                                                  Mesh: Pyra...
DRD1, 1812      adenylate cyclase activation
ADRB2, 154      adenylate cyclase activation
ADRB2, 154      arrestin mediate...
we can transform complex queries into links
http://hcls1.csail.mit.edu:8890/sparql/?query=prefix%20go%3A%20%3Chttp%3A%2F%2F...
we can transform complex queries into links
we can help scholars “remix” queries
  prefix go: <http://purl.org/obo/owl/GO#>
  prefix rdfs: <http://www.w3.org/2000/01/rd...
we can build a corpus of queries as links
we can re-use cultural tools for scholarship
conclusion?
don’t wait.
use existing systems.
hack around problems.
create new ways to measure.
build your own commons.
thank you

wilbanks@creativecommons.org

  http://sciencecommons.org
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
Presentation to Federation of Earth Science Information Partners
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Transcript of "Presentation to Federation of Earth Science Information Partners"

  1. 1. ESIP semi-annual meeting washington, dc 6 january 2009 john wilbanks creative commons / science commons
  2. 2. metcalfe’s law
  3. 3. “information wants to be free”
  4. 4. “if free, and technically enabled, information trends towards connectivity and increased value”
  5. 5. information knowledge?
  6. 6. digitization changes knowledge journals, databases, ontologies, wikis, annotations...
  7. 7. why no disruptions like Metcalfe’s Law for knowledge?
  8. 8. disruptive processes can’t be planned in advance.
  9. 9. disruptive processes can’t be planned in advance. planned innovation tends to be incremental, and slow.
  10. 10. disruptive processes can’t be planned in advance. planned innovation tends to be incremental, and slow. ...and not innovative.
  11. 11. 1. stable systems are resistant to change on multiple levels.
  12. 12. © creative expression
  13. 13. the container, not the facts.
  14. 14. the container, not the facts. © locks the container. but
  15. 15. IGFBP-5 plays a role in the regulation of cellular senescence via a p53-dependent pathway and in aging-associated vascular diseases
  16. 16. IGFBP-5 plays a role in the regulation of cellular senescence via a p53-dependent pathway and in aging-associated vascular diseases
  17. 17. indexing: disallowed. http://orpheus-1.ucsd.edu/acq/license/cdlelsevier2004.pdf
  18. 18. creative work?
  19. 19. 40 minutes per year
  20. 20. nih policy.
  21. 21. Dorothea Salo, http://cavlec.yarinareth.net/2008/10/31/miniature-disasters-and-minor-catastrophes/
  22. 22. the existing system is robust against disruption the existing system is robust against disruption
  23. 23. this is how evolved systems resist change: at multiple levels, with multiple fail-safes.
  24. 24. 2. the “digital commons” presents us with a potential way out.
  25. 25. “the commons”
  26. 26. rivalrous v. non-rivalrous
  27. 27. small contributions. snap-together licensing. technically enabled.
  28. 28. “the commons”
  29. 29. “intellectual property”
  30. 30. knowledge rights
  31. 31. copyright
  32. 32. most uses free
  33. 33. most regulated uses commercial
  34. 34. couldn’t legally control perfectly
  35. 35. copyright regulates “copies”
  36. 36. in digital world
  37. 37. every use = “copy”
  38. 38. thus, presumption: every use requires permission
  39. 39. Copyright All Rights Reserved No Rights Reserved
  40. 40. Copyright All Rights Reserved No Rights Reserved
  41. 41. licensing step 1: choose conditions Attribution Share Alike Non-Commercial No Derivative Works
  42. 42. Ported to 50 Jurisdictions
  43. 43. 160M
  44. 44. 160M
  45. 45. solves the legal problem
  46. 46. but not the container problem.
  47. 47. over 200 years at one paper/day
  48. 48. what you want is a list of genes. not a list of documents.
  49. 49. building a web for data: the “semantic web”
  50. 50. databases as unique entities, instead of nodes in a network
  51. 51. “packages”
  52. 52. scalable aggregation
  53. 53. not-software scalable modular
  54. 54. lots of people open licenses community norms
  55. 55. 3. reports from the front lines: building a commons is really, really hard.
  56. 56. whichever we choose, we need some way for computers to help us theorize, and to leverage the work of others (either to build on or to use in creative anarchy)
  57. 57. exponential content growth
  58. 58. our brain capacity 5.00 3.75 2.50 1.25 0 1990 1994 1998 2002
  59. 59. but if we can work together...
  60. 60. open copyright, balanced incentives, and distributed workloads
  61. 61. Open Access Content
  62. 62. c >1000 journals under CC image from the public library of science licensed to the public under CC-BY 3.0
  63. 63. running policy code (w. SPARC)
  64. 64. + + + is it legal? + + + + +
  65. 65. conflicts with the protection instinct
  66. 66. conflicts with the protection instinct the protection instinct is sometimes an instinct to protect “freedom”
  67. 67. http://visibleearth.nasa.gov/
  68. 68. Open Source Data Integration
  69. 69. a repository of ontologies, namespaces, and integrated databases.
  70. 70. e pluribus unum.
  71. 71. we can transform complex queries into links Mesh: Pyramidal Neurons prefix go: <http://purl.org/obo/owl/GO#> prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> prefix owl: <http://www.w3.org/2002/07/owl#> prefix mesh: <http://purl.org/commons/record/mesh/> prefix sc: <http://purl.org/science/owl/sciencecommons/> prefix ro: <http://www.obofoundry.org/ro/ro.owl#> select ?genename ?processname Pubmed: Journal Articles where { graph <http://purl.org/commons/hcls/pubmesh> { ?paper ?p mesh:D017966 . ?article sc:identified_by_pmid ?paper. ?gene sc:describes_gene_or_gene_product_mentioned_by ?article. } graph <http://purl.org/commons/hcls/goa> { ?protein rdfs:subClassOf ?res. Entrez Gene: Genes ?res owl:onProperty ro:has_function. ?res owl:someValuesFrom ?res2. ?res2 owl:onProperty ro:realized_as. ?res2 owl:someValuesFrom ?process. graph <http://purl.org/commons/hcls/20070416/classrelations> {{?process <http://purl.org/obo/owl/obo#part_of> go:GO_0007166} union GO: Signal Transduction {?process rdfs:subClassOf go:GO_0007166 }} ?protein rdfs:subClassOf ?parent. ?parent owl:equivalentClass ?res3. ?res3 owl:hasValue ?gene. } graph <http://purl.org/commons/hcls/gene> { ?gene rdfs:label ?genename } graph <http://purl.org/commons/hcls/20070416> { ?process rdfs:label ?processname} }
  72. 72. 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 `
  73. 73. we can transform complex queries into links 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
  74. 74. we can transform complex queries into links
  75. 75. we can help scholars “remix” queries prefix go: <http://purl.org/obo/owl/GO#> prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> prefix owl: <http://www.w3.org/2002/07/owl#> prefix mesh: <http://purl.org/commons/record/mesh/> prefix sc: <http://purl.org/science/owl/sciencecommons/> prefix ro: <http://www.obofoundry.org/ro/ro.owl#> select ?genename ?processname where { graph <http://purl.org/commons/hcls/pubmesh> Mesh: Cancer mesh:D009369 { ?paper ?p . ?article sc:identified_by_pmid ?paper. ?gene sc:describes_gene_or_gene_product_mentioned_by ?article. } graph <http://purl.org/commons/hcls/goa> { ?protein rdfs:subClassOf ?res. ?res owl:onProperty ro:has_function. ?res owl:someValuesFrom ?res2. ?res2 owl:onProperty ro:realized_as. ?res2 owl:someValuesFrom ?process. graph <http://purl.org/commons/hcls/20070416/classrelations> go:GO_0006610} {{?process <http://purl.org/obo/owl/obo#part_of> union GO: Ribosomal Protein go:GO_0006610 }} {?process rdfs:subClassOf ?protein rdfs:subClassOf ?parent. ?parent owl:equivalentClass ?res3. ?res3 owl:hasValue ?gene. } graph <http://purl.org/commons/hcls/gene> { ?gene rdfs:label ?genename } graph <http://purl.org/commons/hcls/20070416> { ?process rdfs:label ?processname} }
  76. 76. we can build a corpus of queries as links
  77. 77. we can re-use cultural tools for scholarship
  78. 78. conclusion?
  79. 79. don’t wait.
  80. 80. use existing systems.
  81. 81. hack around problems.
  82. 82. create new ways to measure.
  83. 83. build your own commons.
  84. 84. thank you wilbanks@creativecommons.org http://sciencecommons.org
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