1. Open Notebook Science And the Library
British Columbia Library Association
Open Access Conference
Jean-Claude Bradley
E-Learning Coordinator
College of Arts and Sciences
Drexel University
April 19, 2007

2. Open and Closed Science
Open Notebook
Science (full transparency)
Traditional
Lab Notebook
(unpublished)
Traditional
Journal Article
Open Access Journal Article
RESEARCH
OPEN
CLOSED
TEACHING
Archived Lectures Public and free online textbooks
Lectures Notes public
Traditional
Paper Textbook
F2F lectures
Assigned problems public

3. Agenda
This session will cover the dissemination of primary scientific information via blogs, wikis and other non-traditional vehicles
1. Types of information
raw experimental data (Open Notebook Science)
analyzed data
hypotheses
“failed” experiments
generalized protocols
traditional article format

4. 2. Issues Intellectual Property Referencing and claims to priority
Academic Validation
Peer Review – mandatory and elective

5. 3. Opportunities
Increasing productivity in terms of universally usable knowledge units
Making explicit the nature and quantity of work in collaborations
Using semantically rich formats and automation at zero publication cost – is this the way to the technological singularity?

6. Where is Science headed?
WE ARE HERE

7. The Robot Scientist

8. How will this happen? Self-organizing reduntant processes
Agents can participate with zero or near-zero cost (free hosted services)
Fully Open Access (Read and Write)
Publication of all aspects of the scientific process: Open Source Science / Open Notebook Science

9. How can machines know what is important?
Ask the humans

10. UsefulChem Blog

11. What chemists think is important in 2005

12. Find-A-Drug

13. Diketopiperazine Library
First iteration: Solid Support Synthesis
Evolves to: on pot Ugi reaction/cyclization

14. The Molecules Blog

15. The Experiments Blog

16. Comments from peers

17. The UsefulChem Wiki

18. Telling the story of the failures

19. Experiments moved to wiki

20. Experiment History

21. Experiment Edits

22. Third Party Time-Stamp on Experiment Versions

23. Monitoring experimental progress

24. How are people finding our experiments?

25. Molecules found by InChI

26. Automation in UsefulChem

27. CMLRSS feed on Bioclipse

28. Open science connectivity
More info on open source science here

29. The blog as an integrative tool
usefulchem.blogspot.com

30. The wiki as the laboratory notebook
usefulchem.wikispaces.com/Exp049

31. Graphical Mining of Data with JSpecView
usefulchem.wikispaces.com/Exp049 (2 min)

32. Raw Experimental Data
neurodatabase.org

33. Selected Experiments (some failed)
Orgprepdaily.wordpress.com

34. Vendor Reliability
Orgprepdaily.wordpress.com

35. Generalized Protocols
Openwetware.org

36. Lab Notebook for intra-group communication
Openwetware.org

37. Discussing Hypotheses
RRResearch.blogspot.com

38. Writing Code for the Automation Component
Also – Rich Apodaca, Christoph Steinbeck, Peter Murray-Rust