Open Notebook Science and the Future of Libraries


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Talk at the University of British Columbia Library School April 2, 2008.

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Open Notebook Science and the Future of Libraries

  1. 1. Open Notebook Science: Implications for the Future of Libraries Jean-Claude Bradley E-Learning Coordinator College of Arts and Sciences Associate Professor of Chemistry Drexel University April 2, 2008 University of British Columbia Library School
  2. 2. Open and Closed Science Traditional Lab Notebook (unpublished) Traditional Journal Article Open Access Journal Article Open Notebook Science (full transparency) CLOSED OPEN Traditional Paper Textbook F2F lectures Lectures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
  3. 3. Open Primary Research in Drug Design using Web2.0 tools (blogs, wikis, Second Life, mailing lists) Docking Synthesis Testing Rajarshi Guha Indiana U JC Bradley Drexel U Phil Rosenthal UCSF (malaria) Dan Zaharevitz NCI (tumors) Tsu-Soo Tan Nanyang Inst.
  4. 4. BLOG WIKI Mailing List GoogleDocs UsefulChem infrastructure
  5. 5. Where’s the Beef?
  6. 6. Link to Lab Notebook Page in Wiki
  7. 7. Link to Molecules
  8. 8. Link to Experimental Plan
  9. 9. Link to Docking Procedure (Rajarshi Guha)
  10. 10. Link to Docking Results (Rajarshi Guha)
  11. 11. Procedure Section
  12. 12. Link to Raw Data with JSpecView
  13. 13. Conclusion is Fully Supported
  14. 14. Indexing the Experiments in Google
  15. 15. Searching with Google Custom Search
  16. 16. How are people finding our experiments? NMR in TFA Phenylacetaldehyde c4h6o2 nmr methylene chloride/methanol h'nmr of benzophenone sulfuric acid pka tertbutylamine tosyl isocyanide amino furan dichloromethane polar? Reaction between Benzaldehyde and NaBH4 phosphoric acid pka veratraldehyde wiki kinetics boc deprotection Rf value in polar solvent why glycerol is immiscible with ether side reaction of imines 5.8 ppm nmr nmr cdcl3 chloroform side reaction diasterotopic wiki adding anhydrous MgSO4 to the dichlormethane ether extraction hnmr doublet of doublet Boc-protected NMR chromatotron recipe triplet cdcl3 "13c nmr" Specific Compounds Experimental Conditions
  17. 17. How are people finding UsefulChem? free downloading chemistry video organic chemistry project + high school how to make poster in second life organic chem. quiz 3d periodic tables animation protein docking docking animation why are acid-base reactions exothermic? lysosomal targets protease and malaria cheminformatics project proposal automated reactions malaria review project synthesis CHEMISTRY WEB 2.0 projects on QSAR & drug design chemistry experiment results database Educational Big Picture
  18. 18. Using ChemSpider to archive compound characterization
  19. 19. Comparing Experiments with GoogleDocs
  20. 20. The Most Important Section!
  21. 21. Results in Machine-Friendly Format
  22. 22. Comparing Results in a Table
  23. 23. Table of Contents
  24. 24. Recent Changes in Wiki
  25. 25. Tracking Versions of Wiki Pages
  26. 26. Comparing Versions of Wiki Pages
  27. 27. Telling the story of the failures
  28. 28. Mailing List Facilitates inter-group collaboration
  29. 29. What about the blog? Discussing Funding
  30. 30. Supporting Funding Initiatives
  31. 31. Highlight Popular Media Coverage
  32. 32. Highlight Peer-Reviewed Coverage
  33. 33. Announce Collaborator: Gus Rosania
  34. 34. Announce Collaborator: Matthias Zeller
  35. 35. Announce Collaborator: Phil Rosenthal
  36. 36. Discuss Presentations in Real Life
  37. 37. Discuss Presentations in Second Life
  38. 38. Showcase Science in New Media
  39. 39. Showcase Teaching in New Media
  40. 40. Alerts to Broader Impact Opportunities
  41. 41. Science Philosophy
  42. 42. Gus Rosania’s Notebook
  43. 43. Collaboration with Brent Friesen’s Teaching Lab
  44. 44. Cameron Neylon’s Notebook
  45. 45. Where is Science headed? WE ARE HERE