Soton e-Research talk

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A talk given to the postgraduate course on e-research in the School of Chemistry department of the University of Southampton on March 9 2009. Largely put together with slides from other recent talks.

Technologie Business

http://slideshare.net/cameronneylon

Monday, March 9, 2009

In the last ﬁve years...?

http://ﬂickr.com/photos/stewart/461099066/
Monday, March 9, 2009

...in the past 24 hours?
Monday, March 9, 2009

http://www.ﬂickr.com/photos/nbachiyski/2186228572/
Monday, March 9, 2009

...is to the fully integrated
laboratory record...

Monday, March 9, 2009

The Lab that was Born on the
Web
Cameron Neylon

Monday, March 9, 2009

Lab book as a journal...

http://www.ﬂickr.com/photos/nbachiyski/2186228572/
Monday, March 9, 2009

Blog as journal...

Monday, March 9, 2009

Description, date
categorisation,
objects, identity,
accessibility...

...not of much
interest to most
people
Monday, March 9, 2009

http://biolab.isis.rl.ac.uk/projects/blog/
Monday, March 9, 2009

Automatic Blogging by Machines

Monday, March 9, 2009

Integration and communication

http://pipes.yahoo.com
Monday, March 9, 2009

Procedure Experiment

Material Sample

Data

Data Data

Analysis Analysis

Monday, March 9, 2009

Procedure Experiment

Material Sample
Material Sample
Material Sample

Data

Data Data
Data
Data

Analysis Analysis

Monday, March 9, 2009

Schema?

Stuff gets combined with other stuff and
stuff is done to it to make more stuff.

(Meaning can be layered on later
according to speciﬁc needs)

Monday, March 9, 2009

Data Data
Data
Data Data

Data

Analysis
Procedure
Procedure Analysis

Procedure Procedure

Sample Material Sample Sample

Material Sample Sample
Material

Material Sample Sample
Time

Monday, March 9, 2009

Data services

...get someone else to do the heavy lifting...
Monday, March 9, 2009

Good data services will...
Provide a URL endpoint for any item


Will understand your data type enough...


...to provide simple embed codes and more
sophisticated re-packaging where required

Handle versioning, identity, date stamps,


provenance, security, etc...
Monday, March 9, 2009

Data Data

Samples can be offloaded... Data
Data Data

Data

Analysis
Procedure
Procedure Analysis
LIMS, Database, Blog, Wiki, Spreadsheet...
Procedure Procedure

Sample Material Sample Sample

Material Sample Sample
Material

Material Sample Sample

Time
Monday, March 9, 2009

Data Data

Procedures are just documents... Data
Data Data

Data

Analysis
Procedure
Procedure Analysis

Procedure Procedure

Sample Material Sample Sample

Material Sample Sample
Material

Material Sample Sample

Time
Monday, March 9, 2009

Measuring solubility

Monday, March 9, 2009

http://onschallenge.wikispaces.com/Exp026
Monday, March 9, 2009

http://tinyurl.com/ons-challenge-spreadsheet
Monday, March 9, 2009

http://oru.edu/cccda/sl/descriptorspace/ds.php

Monday, March 9, 2009

http://slurl.com/secondlife/Drexel/165/178/24

Monday, March 9, 2009

113 individual measurements
(plus 71 literature values)
14 researchers in four countries
One undergraduate chemistry class
$6000 funding (for prizes and chemicals)

Monday, March 9, 2009

If we push it all out to other services...

Monday, March 9, 2009

...what are we left with?

Monday, March 9, 2009

The feed of links between resources

Time

Monday, March 9, 2009

How do you capture this?

Monday, March 9, 2009

Capture it at source...

...in context

http://ﬂickr.com/photos/jason_burmeister/2053139930/
Monday, March 9, 2009

...rather than wait till here

http://ﬂickr.com/photos/clairity/114084801/
Monday, March 9, 2009

Lane Sample uL
1 [[DNA:%]] [[box]]
2 [[DNA:%]] [[box]]
3 [[DNA:%]] [[box]]

[[Section>Procedure]]
[[Procedure_Type>electrophoresis_agarose]]
[[Sandpit_group>ahm2007]]

Monday, March 9, 2009

A framework. Not a system.

Monday, March 9, 2009

Standardize the connections

Monday, March 9, 2009

Not the endpoints

Monday, March 9, 2009

Why does this matter to you?

Monday, March 9, 2009

networks of events/objects…
Monday, March 9, 2009

networks of publications…

© Cell Press, Nature Publishing Group, American
Chem Soc, American Soc Microbiology, fair use
claimed
Monday, March 9, 2009

networks of
people…
Monday, March 9, 2009

network of science?
Monday, March 9, 2009

http://www.mapofscience.com/
Monday, March 9, 2009

Not just papers, but ideas,
web pages, data, materials,
software

Monday, March 9, 2009

And if the cited objects are
not open and available?

Monday, March 9, 2009

Research impact
=
Google PageRank

Monday, March 9, 2009

High PageRank
=
Wired into the network

Monday, March 9, 2009

The best science

The best communication

With the best tools available

Monday, March 9, 2009

Need to make an active choice
about how you interact with
the “web of science”

Monday, March 9, 2009

Jeremy Frey
Jenny Hale
Andrew Milsted
Southampton development team
Simon Coles
Steve Wilson
Mark Borkum
Dave de Roure

Jean-Claude Bradley
Rajarshi Guha
Open Notebook Science
Andy Lang
Solubility Challenge
Antony Williams
Egon Willighagen
Pierre Lindenbaum

Monday, March 9, 2009

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Soton e-Research talk

1. http://slideshare.net/cameronneylon Monday, March 9, 2009

2. In the last ﬁve years...? http://ﬂickr.com/photos/stewart/461099066/ Monday, March 9, 2009

3. ...in the past 24 hours? Monday, March 9, 2009

4. http://www.ﬂickr.com/photos/nbachiyski/2186228572/ Monday, March 9, 2009

5. ...is to the fully integrated laboratory record... Monday, March 9, 2009

6. as... Monday, March 9, 2009

7. Monday, March 9, 2009

8. is to... Monday, March 9, 2009

9. Monday, March 9, 2009

10. The Lab that was Born on the Web Cameron Neylon Monday, March 9, 2009

11. Lab book as a journal... http://www.ﬂickr.com/photos/nbachiyski/2186228572/ Monday, March 9, 2009

12. Blog as journal... Monday, March 9, 2009

13. Description, date categorisation, objects, identity, accessibility... ...not of much interest to most people Monday, March 9, 2009

14. http://biolab.isis.rl.ac.uk/projects/blog/ Monday, March 9, 2009

15. Automatic Blogging by Machines Monday, March 9, 2009

16. Integration and communication http://pipes.yahoo.com Monday, March 9, 2009

17. Monday, March 9, 2009

18. http://biolab.isis.rl.ac.uk/projects/blog/ Monday, March 9, 2009

19. Monday, March 9, 2009

20. Monday, March 9, 2009

21. Procedure Experiment Material Sample Data Data Data Analysis Analysis Monday, March 9, 2009

22. Procedure Experiment Material Sample Material Sample Material Sample Data Data Data Data Data Analysis Analysis Monday, March 9, 2009

23. Monday, March 9, 2009

24. Schema? Stuff gets combined with other stuff and stuff is done to it to make more stuff. (Meaning can be layered on later according to speciﬁc needs) Monday, March 9, 2009

25. Data Data Data Data Data Data Analysis Procedure Procedure Analysis Procedure Procedure Sample Material Sample Sample Material Sample Sample Material Material Sample Sample Time Monday, March 9, 2009

26. Data Data Data Data Data Data Analysis Procedure Procedure Analysis Procedure Procedure Sample Material Sample Sample Material Sample Sample Material Material Sample Sample Time Monday, March 9, 2009

27. Data services ...get someone else to do the heavy lifting... Monday, March 9, 2009

28. Monday, March 9, 2009

29. Monday, March 9, 2009

30. Monday, March 9, 2009

31. Good data services will... Provide a URL endpoint for any item  Will understand your data type enough...  ...to provide simple embed codes and more sophisticated re-packaging where required Handle versioning, identity, date stamps,  provenance, security, etc... Monday, March 9, 2009

32. Data Data Data Data Data Data Analysis Procedure Procedure Analysis Procedure Procedure Sample Material Sample Sample Material Sample Sample Material Material Sample Sample Time Monday, March 9, 2009

33. Data Data Samples can be offloaded... Data Data Data Data Analysis Procedure Procedure Analysis LIMS, Database, Blog, Wiki, Spreadsheet... Procedure Procedure Sample Material Sample Sample Material Sample Sample Material Material Sample Sample Time Monday, March 9, 2009

34. Data Data Procedures are just documents... Data Data Data Data Analysis Procedure Procedure Analysis Procedure Procedure Sample Material Sample Sample Material Sample Sample Material Material Sample Sample Time Monday, March 9, 2009

35. Measuring solubility Monday, March 9, 2009

36. http://onschallenge.wikispaces.com/Exp026 Monday, March 9, 2009

37. http://tinyurl.com/ons-challenge-spreadsheet Monday, March 9, 2009

38. http://oru.edu/cccda/sl/descriptorspace/ds.php Monday, March 9, 2009

39. http://oru.edu/cccda/sl/descriptorspace/ds.php Monday, March 9, 2009

40. Monday, March 9, 2009

41. http://slurl.com/secondlife/Drexel/165/178/24 Monday, March 9, 2009

42. 113 individual measurements (plus 71 literature values) 14 researchers in four countries One undergraduate chemistry class $6000 funding (for prizes and chemicals) Monday, March 9, 2009

43. 113 individual measurements (plus 71 literature values) 14 researchers in four countries One undergraduate chemistry class $6000 funding (for prizes and chemicals) Four months Monday, March 9, 2009

44. If we push it all out to other services... Monday, March 9, 2009

45. ...what are we left with? Monday, March 9, 2009

46. Time Monday, March 9, 2009

47. The feed of links between resources Time Monday, March 9, 2009

48. How do you capture this? Monday, March 9, 2009

49. Capture it at source... ...in context http://ﬂickr.com/photos/jason_burmeister/2053139930/ Monday, March 9, 2009

50. ...rather than wait till here http://ﬂickr.com/photos/clairity/114084801/ Monday, March 9, 2009

51. Lane Sample uL 1 [[DNA:%]] [[box]] 2 [[DNA:%]] [[box]] 3 [[DNA:%]] [[box]] [[Section>Procedure]] [[Procedure_Type>electrophoresis_agarose]] [[Sandpit_group>ahm2007]] Monday, March 9, 2009

52. Lane Sample uL 1 [[DNA:%]] [[box]] 2 [[DNA:%]] [[box]] 3 [[DNA:%]] [[box]] [[Section>Procedure]] [[Procedure_Type>electrophoresis_agarose]] [[Sandpit_group>ahm2007]] Monday, March 9, 2009

53. Lane Sample uL 1 [[DNA:%]] [[box]] 2 [[DNA:%]] [[box]] 3 [[DNA:%]] [[box]] [[Section>Procedure]] [[Procedure_Type>electrophoresis_agarose]] [[Sandpit_group>ahm2007]] Monday, March 9, 2009

54. A framework. Not a system. Monday, March 9, 2009

55. Standardize the connections Monday, March 9, 2009

56. Not the endpoints Monday, March 9, 2009

57. Why does this matter to you? Monday, March 9, 2009

58. networks of events/objects… Monday, March 9, 2009

59. networks of publications… © Cell Press, Nature Publishing Group, American Chem Soc, American Soc Microbiology, fair use claimed Monday, March 9, 2009

60. networks of people… Monday, March 9, 2009

61. network of science? Monday, March 9, 2009

62. http://www.mapofscience.com/ Monday, March 9, 2009

63. Monday, March 9, 2009

64. Not just papers, but ideas, web pages, data, materials, software Monday, March 9, 2009

65. Monday, March 9, 2009

66. And if the cited objects are not open and available? Monday, March 9, 2009

67. Monday, March 9, 2009

68. Research impact = Google PageRank Monday, March 9, 2009

69. High PageRank = Wired into the network Monday, March 9, 2009

70. = Monday, March 9, 2009

71. Available Monday, March 9, 2009

72. The best science The best communication With the best tools available Monday, March 9, 2009

73. Monday, March 9, 2009

74. Monday, March 9, 2009

75. Monday, March 9, 2009

76. Monday, March 9, 2009

77. Monday, March 9, 2009

78. Monday, March 9, 2009

79. Need to make an active choice about how you interact with the “web of science” Monday, March 9, 2009

80. Jeremy Frey Jenny Hale Andrew Milsted Southampton development team Simon Coles Steve Wilson Mark Borkum Dave de Roure Jean-Claude Bradley Rajarshi Guha Open Notebook Science Andy Lang Solubility Challenge Antony Williams Egon Willighagen Pierre Lindenbaum Monday, March 9, 2009

81. Monday, March 9, 2009

Soton e-Research talk

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