Jean-Claude Bradley presents at the Science Commons Symposium on Feb 20, 2010 at the Microsoft Campus in Redmond. The talk covers doing Open Notebook Science using free and hosted tools, including new archiving protocols developed with Andrew Lang.

1. Using Free Hosted Web2.0 Tools for Open Notebook Science Jean-Claude Bradley February 20, 2010 Science Commons Symposium Associate Professor of Chemistry Drexel University

3. How bad is our current system? Try to find the solubility EGCG?

4. =2.3 g/L WTF?!

5. The End of the Chain of Provenance

6. The NaH oxidation controversy

7. Information spreads quickly through the blogosphere

8. 15% NMR yield

10. Khalid Mirza and Marshall Moritz

12. Top results on a Google search

13. The Scandal of Bell’s Lab Notebook

14. Motivation: Faster Science, Better Science

15. Open Notebook Science Logos (Andy Lang, Shirley Wu) Sharing: how much and when

16. There are NO FACTS, only measurements embedded within assumptions Open Notebook Science maintains the integrity of data provenance by making assumptions explicit

17. TRUST PROOF

18. The solubility of 4-chlorobenzaldehyde

19. The Log makes Assumptions Explicit

20. The Rationale of Findings Explicit

21. Raw Data Made Public Splatter? Some liquid

22. YouTube for demonstrating experimental set-up

23. Calculations Made Public on Google Spreadsheets

24. Revision History on Google Spreadsheets

25. Wiki Page History

26. Comparing Wiki Page Versions

27. Proof of Purity with interactive NMR spectrum using JSpecView and JCAMP-DX

28. Linking to Molecules in Chemistry Databases

29. Experimental Spectra and User-Deposited Data on ChemSpider

30. (Andy Lang, Tony Williams) Open Data JCAMP spectra for education (Andy Lang, Tony Williams, Robert Lancashire)

31. Database Curation via Game Playing

32. Over 100,000 spectrum views so far - worldwide

33. Link Spectral Game to Open Educational Content

34. The Ugi reaction: can we predict precipitation? Can we predict solubility in organic solvents?

35. Crowdsourcing Solubility Data

36. ONS Submeta Award Winners

37. ONS Challenge Judges

38. Teaching Lab: Brent Friesen (Dominican University)

39. Solubility Experiment List

40. Solubilities collected in a Google Spreadsheet

41. Rajarshi Guha’s Live Web Query using Google Viz API

42. WE ARE HERE How can the scientific process become more automated?

43. Semi-Automated Measurement of solubility via web service analysis of JCAMP-DX files (Andy Lang)

45. Solubility Prediction (Andy Lang’s Model)

46. Understanding in addition to empirical modeling Missed in a prior publication on solubility for this compound

47. Data provenance: From Wikipedia to…

48. … the lab notebook and raw data

49. Including links to the literature

51. Paper written on Wiki

52. References to papers, blog posts, lab notebook pages, raw data

53. Paper on Journal of Visualized Experiments (JoVE)

54. Pre-print on Nature Precedings

55. ChemSpider Automated Mark-up of Chemical Names

56. BUT… Open Access: the Choice that Keeps Giving.. and Giving…

57. Beware of your addiction to metrics: redundancy will reduce them

58. Cameron Neylon’s Notebooks Other Open Notebooks

59. Anthony Salvagno’s Notebook (Steve Koch group)

60. Traditional Lab Notebook (unpublished) Traditional Journal Article Open Access Journal Article Open Notebook Science (full transparency) CLOSED OPEN Traditional Paper Textbook F2F lectures Lectures Notes public Assigned problems public Archived Lectures Public and free online textbooks RESEARCH TEACHING Where do Libraries fit in the communication of science and education in the Open/Closed Continuum?

62. Librarians and Science 2.0 "The Internet Archive is a 501(c)(3) non-profit that was founded to build an Internet library, with the purpose of offering permanent access for researchers, historians, and scholars to historical collections that exist in digital format." The internet Archive is not practical for practitioners of Open Notebook Science or Science 2.0

63. Good concept but.....

64. Most pages look like this....

65. Where We Began: The ONS backup spreadsheet and ONSPreserver

66. Publishing Google Spreadsheets as XLS

67. Where We Are Now

68. ONSArchive: Semi-Automated Snapshot of the Entire Scientific Record

69. Snapshot is Self-Contained and Live on the Internet

70. Lulu.com Data Disks

71. DSpace – Handle (hdl)

72. Lulu.com - ISBN Google Spreadsheets Google Documents Web Services ChemSpider & Indiana Real Time Linear Regression, Unit Conversions, Style Sheet, etc Data Book

75. Bradley, Jean-Claude; Lang Andrew. Solubilities Summary Sheet. Open Notebook Science Challenge. 2009-12-11. URL:http://spreadsheets.google.com/pub?key=plwwufp30hfq0udnEmRD1aQ&output=xls. Accessed: 2009-12-11. (Archived by WebCite® at http://www.webcitation.org/5lx5ry3BV )

76. More about the ONSarchive project: