Scholar2Scholar presentation


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This is my April 16, 2008 presentation at the Scholar2Scholar conference at Drexel University. I introduce Web2.0 then show how developing anti-malarial agents can be done on blogs and wikis.

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Scholar2Scholar presentation

  1. 1. Enhancing Scientific Communication through Open Notebook Science Jean-Claude Bradley E-Learning Coordinator College of Arts and Sciences Associate Professor of Chemistry Drexel University April 16, 2008 Scholar 2 Scholar Symposium: How Web 2.0 is Changing Scholarly Communication
  2. 2. What is Web 2.0? Source: Markus Angermeier and Tim O’Reilly, Wikipedia
  3. 3. Some of my friends……
  4. 4. Evaluating and Creating Relationships
  5. 5. A Few Examples from FriendFeed
  6. 6. Open and Closed Science Traditional Lab Notebook (unpublished) Traditional Journal Article Open Access Journal Article Open Notebook Science (full transparency) CLOSED OPEN Traditional Paper Textbook F2F lectures Lectures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
  7. 7. Open Primary Research in Drug Design using Web2.0 tools Docking Synthesis Testing Rajarshi Guha Indiana U JC Bradley Drexel U Phil Rosenthal UCSF (malaria) Dan Zaharevitz NCI (tumors) Tsu-Soo Tan Nanyang Inst.
  8. 8. BLOG WIKI Mailing List GoogleDocs UsefulChem ChemSpider CDD
  9. 9. Where’s the Beef?
  10. 10. Link to Lab Notebook Page in Wiki
  11. 11. Link to Molecules
  12. 12. Link to Docking Procedure (Rajarshi Guha)
  13. 13. Link to Docking Results (Rajarshi Guha)
  14. 14. Link to Raw Data with JSpecView
  15. 15. Conclusion is Fully Supported
  16. 16. Indexing the Experiments in Google
  17. 17. Searching with Google Custom Search
  18. 18. 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
  19. 19. 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
  20. 20. Using ChemSpider to archive compound characterization
  21. 21. Comparing Experiments with GoogleDocs
  22. 22. Predicting Precipitates Rajarshi Guha’s Model MESA Analytics Model
  23. 23. The Most Important Section!
  24. 24. Results in Machine-Friendly Format
  25. 25. Table of Contents
  26. 26. Recent Changes in Wiki
  27. 27. Tracking Versions of Wiki Pages
  28. 28. Comparing Versions of Wiki Pages
  29. 29. Telling the story of the failures
  30. 30. Collaborative Drug Discovery (CDD) Database
  31. 31. Mailing List Facilitates inter-group collaboration
  32. 32. What about the blog? Discussing Funding
  33. 33. Supporting Funding Initiatives
  34. 34. Highlight Popular Media Coverage
  35. 35. Highlight Peer-Reviewed Coverage
  36. 36. Announce Collaborator: Gus Rosania
  37. 37. Announce Collaborator: Matthias Zeller
  38. 38. Announce Collaborator: Phil Rosenthal
  39. 39. Discuss Presentations in Real Life
  40. 40. Discuss Presentations in Second Life
  41. 41. Showcase Science in New Media
  42. 42. Showcase Teaching in New Media
  43. 43. Alerts to Broader Impact Opportunities
  44. 44. Science Philosophy
  45. 45. Gus Rosania’s Notebook
  46. 46. Cameron Neylon’s Notebook
  47. 47. Collaboration with Brent Friesen’s Teaching Lab at Dominican University
  48. 48. Where is Science headed? WE ARE HERE
  49. 49. Acknowledgements Khalid Mirza Emily Messner Shannon Oseback Tim Bohinski Dave Strumfels James Giammarco Lin Cheng Sean Gardner Jessica Colditz Alicia Holsey