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Lab Notebooks as Data Management (SLA Winter Virtual Conference 2012)

Lab Notebooks as Data Management (SLA Winter Virtual Conference 2012)



This talk, aimed at librarians, describes the data management issues surrounding paper and electronic lab notebooks. It offers several ways for librarians to support good practices and the transition ...

This talk, aimed at librarians, describes the data management issues surrounding paper and electronic lab notebooks. It offers several ways for librarians to support good practices and the transition from paper to electronic.



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    Lab Notebooks as Data Management (SLA Winter Virtual Conference 2012) Lab Notebooks as Data Management (SLA Winter Virtual Conference 2012) Presentation Transcript

    • LAB NOTEBOOKS ASDATA MANAGEMENTSupporting Good Practices and the Transitionfrom Paper to Electronic Notebooks Dr. Kristin A. Briney The University of Wisconsin-Madison SLA Winter Virtual Conference 7 December 2012
    • Pre-publication v. Post-publication Data• Lot of management work done in second area• This talk focuses on first area • Scientists need most help here• Data management very important in pre-publication • Help scientists find their own data, saving time and effort • Help scientist share data • Even within a lab this is important! • Help senior researchers/PIs keep track of data-long term as subordinates leave • Makes post-publication management smoother
    • The Scientific Process• Literature review• Experiment design and grant writing• Acquire raw data• Data analysis• Repeat acquisition and analysis• (Maybe share data)• Make data presentational and write paper• Submit paper and eventually publish it• [Post-publication] *Domain of the lab notebook
    • Data and Metadata CurrentlyFlickr: proteinbiochemist Flickr: jurvetson
    • Current Data and Metadata Problems• Searching is a huge problem • Effectively need to search 2 difference systems to find one experiment• Long-term concerns with keeping data and metadata together• Back-ups are an issue• No standard for digital file organization• Practices vary lab-to-lab AND researcher-to-researcher • Extremely difficult to find someone else’s data currently
    • Data and Metadata in the Future • Electronic Lab Notebooks (ELNs)Note: I am not endorsing any particular lab notebook software package. I will cover software that UW-Madison has looked into.
    • Data and Metadata in the Future• Easy searching• All files in one place• Linking between pages• Customization• Easier sharing • Controlled access• Audit trail • eSignatures • Revision history
    • Data and Metadata in the Future• Bugs, upgrades, and other digital issues• Effort to transition• Unsettled ELN market • In first generation of ELNs• Using files in 10 years• Data storage • Location and ownership issues• Data security and backups • Need to have reliable system in place
    • Recent UW-Madison ELN Pilot• Tested 2 notebooks, CERF and eCAT • 55 users, majority never used an ELN before• At end of pilot, 91% of respondents wanted to continue using an ELN • 60% of CERF users wanted to try a different ELN• Required <12 hours to learn interface • Users employed training sessions and trial and error to learn• Users liked linking and adding data files• Drawing tools and mobile versions did not live up to expectations• http://academictech.doit.wisc.edu/ideas/electronic-lab-notebooks
    • How Librarians Can Help• Teach basic information organization• Help preserve old notebooks• Know the properties of a good ELN• Educate on how to choose an ELN• Support the transition to ELNs
    • Teach Basic Information Organization • Surrogate records! • Record necessary metadata in notebook to point to file • How to organize digital files • This is our wheelhouse and will help scientists with searching • Suggest file naming and organization conventions • Avoid “ / : * ? ‘ < > [ ] & $ characters • Use underscores not spaces • Date files and do it consistently (YYYY-MM-DD) • Label folders with reference to notebook • Example: C:DocumentsBrineyNotebookIV2012-12-07http://researchdata.wisc.edu/manage-your-data/file-naming-and-versioning/
    • Preserve Old Paper Notebooks • Add lab notebooks to library collection • Ask what do retiring scientists do with their notebooks? • Did you know? • Data for patents needsFlickr: mabelsound to be retained >26 yr
    • Know the Properties of a Good ELN• Note taking and searching ability• Adding external files• Adding links between pages• Ability to export• Access permissions• eSignatures• Log of revision history • Some researchers are using general note taking software, which doesn’t have this feature. I don’t recommend this software for a lab notebook because of this.
    • Educate on Choosing an ELN• Needs assessment• Test the software• Have an adoption plan• Have an exit strategy• Note: I do not recommend free/demo version of software • Hosting may be outside US • No sharing
    • Needs Assessment• How much do I want to integrate the ELN into my workflow?• How much customization do I want?• Do I need to share? • PI should have access to all notebooks at very least• Where should the information be stored? • If cloud-based, look for US-based hosting• Can I support a local server hosting the ELN?• How much can I spend? • Open Source up to $1000 per person per year
    • Test the Software• Can be big financial investment• One ELN software package will not work for everyone• Ask to test before purchase • Ideally a week-to-month long test in the lab • Use as a notebook and look at features in depth • Keep both paper and electronic records during test• Takes time and effort to test but very important • Won’t buy a car without a test drive. Same for an ELN.
    • Have an Adoption Plan• Large shift in workflow in adoption of ELN• Adoption strategies • Adopt at beginning of a project • Rolling adoption with new researchers • Or just plunge in!• Put someone in charge of installation• Get software support• Get IT support • Backups
    • Have an Exit Strategy• No guarantee that current notebooks will be here in 5 years• Ideally, write files to an open file format • PDF common • XML • HTML • Word (.doc/.docx)• At worst, need to be able to print out all pages • Useful to have a batch method to do this
    • Support the Transition to ELNs• Transitioning to an ELN involves scientists, library and IT • Who is going to train scientists?• Library can offer important training on ELN software • Fold into information literacy instruction • Great opportunity to also teach basic data management skills • Target grad students (academia) and focus on research groups• Keep an eye on the changing market • Products coalescing market share • Developing standards
    • The Future is ELNs• ELNs will help with data management in the laboratory• ELNs will become the norm in research by the end of my career • Researchers in industry may be using ELNs now• May be 5-10 years before market coalesces • Enterprise ahead of academic market • Good products available now• Lots of benefits and some risks in adopting an ELN • Keeping a paper notebook has risks but they’re different • Need digital infrastructure to support ELN • If risks too big, wait a few years
    • Summary• Scientists need help with pre-publication data management• Paper lab notebooks are problematic in a digital world• ELNs can solve these issues but have concerns of their own• Librarians can help by • Teaching good digital organization skills • Preserving old paper notebooks • Consult with scientist on good ELNs and transitioning to them• ELNs are the future and scientists will need support with the transition
    • Resources• (2009). Guide for keeping laboratory records. Rockville, MD: National Cancer Institute, Technology Transfer Center.• Kanare, H. M. (1985). Writing the laboratory notebook. Washington, D.C.: American Chemical Society.• DoIT Academic Technologies (2012). Electronic Lab Notebook Pilot at the University of Wisconsin-Madison. Madison, WI: University of Wisconsin-Madison http://academictech.doit.wisc.edu/ideas/electronic-lab- notebooks
    • Thanks!• SLA DCHE and PHT• Jan Cheetham, UW DoIT Academic Technologies• Victoria Sutton, UW WARF• This presentation available under a Creative Commons Attribution-NonCommercial 3.0 license• Slides will be available at: http://www.slideshare.net/kbriney