Columbia ONS Archiving May09

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    Columbia ONS Archiving May09 - Presentation Transcript

    1. Libraries and digital scholarship, documenting Open Notebook Science Jean-Claude Bradley May 20, 2009 Columbia University Associate Professor of Chemistry Drexel University Andrew Lang Professor of Mathematics Oral Roberts University
    2. Outline
        • ONS and Digital Scholarship
        • Roles and opportunities for Libraries
    3. Open and Closed Science Traditional Lab Notebook (unpublished) Traditional Journal Article Open Access Journal Article Open Notebook Science (full transparency) CLOSED OPEN Traditional Paper Textbook F2F lectures Lectures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
    4. Motivation: Faster Science, Better Science
    5. Open Notebook Science Logos (Andy Lang, Shirley Wu) Sharing: how much and when
    6. There are NO FACTS, only measurements embedded within assumptions Open Notebook Science maintains the integrity of data provenance by making assumptions explicit
    7. TRUST PROOF
    8. The solubility of 4-chlorobenzaldehyde
    9. The Log makes Assumptions Explicit
    10. The Rationale of Findings Explicit
    11. Raw Data Made Public Splatter? Some liquid
    12. YouTube for demonstrating experimental set-up
    13. Calculations Made Public on Google Spreadsheets
    14. Revision History on Google Spreadsheets
    15. Wiki Page History
    16. Comparing Wiki Page Versions
    17. Proof of Purity with interactive NMR spectrum using JSpecView and JCAMP-DX
    18. Semi-Automated Measurement of solubility via web service analysis of JCAMP-DX files (Andy Lang)
    19. Indexing Molecules on Google
    20. Linking to Molecules in Chemistry Databases
    21. Experimental Spectra and User-Deposited Data on ChemSpider
    22. Crowdsourcing Solubility Data
    23. ONS Challenge Students
    24. ONS Challenge Judges
    25. Teaching Lab: Brent Friesen (Dominican University)
    26. Solubility Experiment List
    27. Summary of Solubility Experiments
    28. Solubilities collected in a Google Spreadsheet
    29. Rajarshi Guha’s Live Web Query using Google Viz API
    30. From Wikipedia to…
    31. … the lab notebook and raw data
    32. Including links to the literature
        • Concentration (0.4, 0.2, 0.07 M)
        • Solvent (methanol, ethanol, acetonitrile, THF)
        • Excess of some reagents (1.2 eq.)
      Reaction to Optimize
    33. Mettler-Toledo MiniMapper
    34. Mettler-Toledo MiniBlock System
    35. XML reports from MiniMapper robot
    36. GoogleDoc to program and report
    37. Paper written on Wiki
    38. Paper on Journal of Visualized Experiments (JoVE)
    39. References to papers, blog posts, lab notebook pages, raw data
    40. Where’s the Beef?
    41. Pre-print on Nature Precedings
    42. ChemSpider Journal: Automated Mark-up of Chemical Names
    43.  
    44. Cameron Neylon’s Notebook Other Open Notebooks
    45. Anthony Salvagno’s Notebook (Steve Koch group)
    46. The Missing Pieces of the Puzzle
        • Automatic Backup of Science 2.0 Data
        • Archiving of Open Notebooks
        • Science 2.0 Community Needed Resources - Preservation, Cataloging, Archiving, Cite-ability
    47. The ONS backup spreadsheet and ONSPreserver
    48. Publishing Google Spreadsheets as XLS
    49. Automatic Backup of Data
    50. Archiving Open Notebooks
    51. 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 
    52. Good concept but.....
    53. Most pages look like this....
    54. Possible role for libraries:  citation to objective third party archives of digital scholarship
    55. Acknowledgments
        • Rajendra Bose (Columbia)
        • Tim Bohinsky (Drexel)
        • David Bulger (Oral Roberts)
        • Rajarshi Guha (NIH)
        • Jenny Hale (Southampton)
        • Khalid Mirza (Drexel)
        • Cameron Neylon (Southampton)
        • Tom Osborne (Mettler-Toledo)
        • Kevin Owens (Drexel)
        • Antony Williams (ChemSpider)

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