Science in the open
What can be done? What should be done?
Science in the open
What can be done? What should be d?
                               a done?
                        it ...
About me.
I live in Bath




http://www.flickr.com/photos/andypowe11/3915450391
I work at RAL
I work for STFC...
But
The opinions expressed in this talk are
the personal views of the speaker
given as a private citizen and should
not un...
I get up in the morning




http://www.flickr.com/photos/andypowe11/3251538402
...and catch a train




http://www.flickr.com/photos/mattbuck007/3710451826
...and a bus
...to get to work
I work on...



Wikimedia Commons                               Wikimedia Commons
Succinate_Dehydrogenase_1YQ3_and_Membran...
...and get to do cool stuff
Mixture of small-lab work...
...and big facility experiments
Lots of reading...




http://www.flickr.com/photos/loty/326761635
...meetings...




http://www.flickr.com/photos/amagill/38961674
...too much travel...
http://www.flickr.com/photos/22819720@N02/2306780847
Why?
Why do they pay?
Why do they pay?




http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
Why do they pay?
        w e



http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
Cures...




http://www.flickr.com/photos/59334544@N00/2322167178
Prestige...



http://www.flickr.com/photos/natematias/310642831 CC-BY-SA
http://www.flickr.com/photos/penmachine/2109311458/
                                                     ...excitement
Why do I do it?
Mortgage...


http://www.flickr.com/photos/joeshlabotnik/2143212474 CC-BY
...curiosity...


http://www.flickr.com/photos/emiliodelprado/225161313
Fun!




http://www.flickr.com/photos/wwworks/2908834853
This is a privilege.
Not a right.
http://www.flickr.com/photos/jamescridland/3947254236
But how?




http://www.flickr.com/photos/valeriebb/2248744703
But sometimes...
...formal publication




http://flickr.com/photos/nicmcphee/2756494307/
http://www.flickr.com/photos/siberianluck/3450937497
                                                      ...is overkill...
An example
9:00 am, 4 September 2008
http://usefulchem.wikispaces.com/Exp207




                                          Flickr tag: UC207
7:36	
  pm,	
  4	
  September	
  2008
Publishing is easy...
http://www.flickr.com/photos/cybershotking/329184504/
...data, documents, media...
Broadcasting is easy...
...sharing is harder




http://www.flickr.com/photos/missrogue/107787363
Interoperability is the key...




http://www.flickr.com/photos/sfllaw/222795669
Technical interoperability...




                                ...formats, vocabularies
http://www.flickr.com/photos/jef...
Legal interoperability...
http://www.flickr.com/photos/spunter/3239363956
Legal interoperability...
http://www.flickr.com/photos/spunter/3239363956
Legal interoperability...
http://www.flickr.com/photos/spunter/3239363956
Technical     Legal
 interop.    interop.



      Process
  interoperability
Systems need to work
with existing process
...and people
A short story...
MyTea project:
                       A fully semantic
                       laboratory record
                       for...
But not molecular biology
General




                    MyTea
Specific

     Unstructured   Structured
General


                    ?

                        MyTea
Specific

     Unstructured       Structured
General
            Blogs


                    ?

                        MyTea
Specific

     Unstructured       Structur...
A recipe for chaos?




http://www.flickr.com/photos/benuski/3452291541
Yes to start with...
But then something
interesting happened...
Templates   Metadata
Self assembling ontology?
               Sequence ontology:
               SO:0000696 “oligo”
               SO:0000155 “p...
Capture first...




http://www.flickr.com/photos/furtwangl/3851841424
Dionaea muscipula                 Musca domestica
                     chomped on




                    ...then add stru...
Map our process onto
 agreed vocabularies
...when we tell the story




http://www.flickr.com/photos/tnarik/366393127
Machines do structure

http://www.flickr.com/photos/yeowatzup/2463225297
Machines need structure

http://www.flickr.com/photos/yeowatzup/2463225297
....humans tell stories
Tools that capture the
  pieces of the research
record as we create them
Tools that capture
  structure as we choose
the pieces for our narrative
Tools that exploit structure
that is already in the process
What can we do?
Technically able to share
http://www.flickr.com/photos/yourdon/3088582622
...the whole record

http://commons.wikimedia.org/wiki/File:AGBell_Notebook.jpg
...but will we want to share?




http://www.flickr.com/photos/66164549@N00/2162663143
No.
The mainstream
response looks like
http://flickr.com/photos/zanotti/314391903/
...or...
http://www.flickr.com/photos/tammra/283690669/
...leading to a lot of...
http://www.flickr.com/photos/tranchis/3708549622
How do we persuade?




http://www.flickr.com/photos/mattymatt/3017263513
Actually I’m not worried...
Submissions to Genbank
100,000,000,000


 75,000,000,000


 50,000,000,000


 25,000,000,000


             0
            ...
Average Capacity of Human Scientist
5.00


3.75


2.50


1.25


  0
  1982     1986   1990   1994   1998   2002   2006
The human scientist
    (that’s me)
 Does. Not. Scale.
The web scales
Government doesn’t scale
http://www.flickr.com/photos/amagill/38961674




            ...research groups don’t scale
The web scales
Scientists will need to be
web-native just to survive
Web native means connected




Bollen J, Van de Sompel H, Hagberg A, Bettencourt L, Chute R, et al. (2009) Clickstream Dat...
which means sharing...




http://www.flickr.com/photos/doubledareya/2443303399
“I propose the seeming paradox
that in science, private property is
     established by having its
 substance freely given...
Not just papers
And if the objects are not
  open and available?
Open content builds
   the network
The network is the only
 way we will keep up
If we build tools that help
scientists build networks...
… then (more) open
                                   research will follow




http://flickr.com/photos/good-karma/71006805...
Cameron.Neylon@stfc.ac.uk
http://blog.openwetware.org/scienceintheopen
http://slideshare.net/cameronneylon
Twitter:     @c...
Science in the Open
Science in the Open
Science in the Open
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Science in the Open
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Science in the Open

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Thirty minute talk given at the fourth Portugese Open Access Meeting in Braga in late 2009. This talk draws from previous similar talks focussing on advocacy for open data and how to make it work for researchers on the ground.

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Science in the Open

  1. 1. Science in the open What can be done? What should be done?
  2. 2. Science in the open What can be done? What should be d? a done? it le m ig ht he re nd w A
  3. 3. About me.
  4. 4. I live in Bath http://www.flickr.com/photos/andypowe11/3915450391
  5. 5. I work at RAL
  6. 6. I work for STFC...
  7. 7. But The opinions expressed in this talk are the personal views of the speaker given as a private citizen and should not unders any circumstances be taken of as indicative of STFC, RCUK, or government policy or of any discussions within these organizations of future policy....
  8. 8. I get up in the morning http://www.flickr.com/photos/andypowe11/3251538402
  9. 9. ...and catch a train http://www.flickr.com/photos/mattbuck007/3710451826
  10. 10. ...and a bus
  11. 11. ...to get to work
  12. 12. I work on... Wikimedia Commons Wikimedia Commons Succinate_Dehydrogenase_1YQ3_and_Membrane.png MGMT BDNA_1T38.png
  13. 13. ...and get to do cool stuff
  14. 14. Mixture of small-lab work...
  15. 15. ...and big facility experiments
  16. 16. Lots of reading... http://www.flickr.com/photos/loty/326761635
  17. 17. ...meetings... http://www.flickr.com/photos/amagill/38961674
  18. 18. ...too much travel... http://www.flickr.com/photos/22819720@N02/2306780847
  19. 19. Why?
  20. 20. Why do they pay?
  21. 21. Why do they pay? http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
  22. 22. Why do they pay? w e http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
  23. 23. Cures... http://www.flickr.com/photos/59334544@N00/2322167178
  24. 24. Prestige... http://www.flickr.com/photos/natematias/310642831 CC-BY-SA
  25. 25. http://www.flickr.com/photos/penmachine/2109311458/ ...excitement
  26. 26. Why do I do it?
  27. 27. Mortgage... http://www.flickr.com/photos/joeshlabotnik/2143212474 CC-BY
  28. 28. ...curiosity... http://www.flickr.com/photos/emiliodelprado/225161313
  29. 29. Fun! http://www.flickr.com/photos/wwworks/2908834853
  30. 30. This is a privilege.
  31. 31. Not a right.
  32. 32. http://www.flickr.com/photos/jamescridland/3947254236
  33. 33. But how? http://www.flickr.com/photos/valeriebb/2248744703
  34. 34. But sometimes...
  35. 35. ...formal publication http://flickr.com/photos/nicmcphee/2756494307/
  36. 36. http://www.flickr.com/photos/siberianluck/3450937497 ...is overkill...
  37. 37. An example
  38. 38. 9:00 am, 4 September 2008
  39. 39. http://usefulchem.wikispaces.com/Exp207 Flickr tag: UC207
  40. 40. 7:36  pm,  4  September  2008
  41. 41. Publishing is easy... http://www.flickr.com/photos/cybershotking/329184504/
  42. 42. ...data, documents, media...
  43. 43. Broadcasting is easy...
  44. 44. ...sharing is harder http://www.flickr.com/photos/missrogue/107787363
  45. 45. Interoperability is the key... http://www.flickr.com/photos/sfllaw/222795669
  46. 46. Technical interoperability... ...formats, vocabularies http://www.flickr.com/photos/jeffsand/3871415191
  47. 47. Legal interoperability... http://www.flickr.com/photos/spunter/3239363956
  48. 48. Legal interoperability... http://www.flickr.com/photos/spunter/3239363956
  49. 49. Legal interoperability... http://www.flickr.com/photos/spunter/3239363956
  50. 50. Technical Legal interop. interop. Process interoperability
  51. 51. Systems need to work with existing process
  52. 52. ...and people
  53. 53. A short story...
  54. 54. MyTea project: A fully semantic laboratory record for chemistry http://mytea.org.uk/
  55. 55. But not molecular biology
  56. 56. General MyTea Specific Unstructured Structured
  57. 57. General ? MyTea Specific Unstructured Structured
  58. 58. General Blogs ? MyTea Specific Unstructured Structured
  59. 59. A recipe for chaos? http://www.flickr.com/photos/benuski/3452291541
  60. 60. Yes to start with...
  61. 61. But then something interesting happened...
  62. 62. Templates Metadata
  63. 63. Self assembling ontology? Sequence ontology: SO:0000696 “oligo” SO:0000155 “plasmid” ...but... SO:0000006 “PCR product” or SO:0000412 “rest. fragment”?
  64. 64. Capture first... http://www.flickr.com/photos/furtwangl/3851841424
  65. 65. Dionaea muscipula Musca domestica chomped on ...then add structure
  66. 66. Map our process onto agreed vocabularies
  67. 67. ...when we tell the story http://www.flickr.com/photos/tnarik/366393127
  68. 68. Machines do structure http://www.flickr.com/photos/yeowatzup/2463225297
  69. 69. Machines need structure http://www.flickr.com/photos/yeowatzup/2463225297
  70. 70. ....humans tell stories
  71. 71. Tools that capture the pieces of the research record as we create them
  72. 72. Tools that capture structure as we choose the pieces for our narrative
  73. 73. Tools that exploit structure that is already in the process
  74. 74. What can we do?
  75. 75. Technically able to share http://www.flickr.com/photos/yourdon/3088582622
  76. 76. ...the whole record http://commons.wikimedia.org/wiki/File:AGBell_Notebook.jpg
  77. 77. ...but will we want to share? http://www.flickr.com/photos/66164549@N00/2162663143
  78. 78. No.
  79. 79. The mainstream response looks like
  80. 80. http://flickr.com/photos/zanotti/314391903/
  81. 81. ...or...
  82. 82. http://www.flickr.com/photos/tammra/283690669/
  83. 83. ...leading to a lot of...
  84. 84. http://www.flickr.com/photos/tranchis/3708549622
  85. 85. How do we persuade? http://www.flickr.com/photos/mattymatt/3017263513
  86. 86. Actually I’m not worried...
  87. 87. Submissions to Genbank 100,000,000,000 75,000,000,000 50,000,000,000 25,000,000,000 0 1982 1986 1990 1994 1998 2002 2006
  88. 88. Average Capacity of Human Scientist 5.00 3.75 2.50 1.25 0 1982 1986 1990 1994 1998 2002 2006
  89. 89. The human scientist (that’s me) Does. Not. Scale.
  90. 90. The web scales
  91. 91. Government doesn’t scale
  92. 92. http://www.flickr.com/photos/amagill/38961674 ...research groups don’t scale
  93. 93. The web scales
  94. 94. Scientists will need to be web-native just to survive
  95. 95. Web native means connected Bollen J, Van de Sompel H, Hagberg A, Bettencourt L, Chute R, et al. (2009) Clickstream Data Yields High- Resolution Maps of Science. PLoS ONE 4(3): e4803. doi:10.1371/journal.pone.0004803
  96. 96. which means sharing... http://www.flickr.com/photos/doubledareya/2443303399
  97. 97. “I propose the seeming paradox that in science, private property is established by having its substance freely given to others who might want to make use of it.” Merton (1988) ISIS 79:606
  98. 98. Not just papers
  99. 99. And if the objects are not open and available?
  100. 100. Open content builds the network
  101. 101. The network is the only way we will keep up
  102. 102. If we build tools that help scientists build networks...
  103. 103. … then (more) open research will follow http://flickr.com/photos/good-karma/710068054/
  104. 104. Cameron.Neylon@stfc.ac.uk http://blog.openwetware.org/scienceintheopen http://slideshare.net/cameronneylon Twitter: @cameronneylon Friendfeed: cameronneylon Thanks to: Text Sciencetwists, Friendfeeders, and the wider online community for ideas, criticism, and conversations. Deepak Singh, Larry Lessig, Andy Powell, and John Wilbanks for presentation inspiration. Flickr and Wikimedia Commons for images
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