Electronic Laboratory Notebooks
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Transcript of Electronic Laboratory Notebooks
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Electronic Lab Notebooks (ELNs)
Kristin A. Briney, PhDData Services Librarian, UWM
3 December 2013
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Documentation
http://www.flickr.com/photos/jjpacres/3293117576/ (CC BY-NC-ND)
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Good documentation is a critical part of managing research data well, now and into the future
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Documentation - Content
• Scientific information• Context of the experiment, measurement description, protocols, etc
• Technical information• Instrument calibrations, how the files fit together, etc
• Data management information• Project information, data collector, data owner, etc
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Documentation - Audience
• For you
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Documentation - Audience
• For you• For future you• For your boss• For your colleagues• For your collaborators• For your peers• For other researchers• For the public
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Documentation - Provenance
• Intellectual property• Accusations of misconduct
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Documentation - Provenance
• Intellectual property• Accusations of misconduct
Why lab notebook best practices are important
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Paper-Based System
http://www.flickr.com/photos/camknows/3821001012/ (CC BY-NC-SA)
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Paper-Based System
• Flexible• Easy to use• Rich history and best practices
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Paper-Based System
• Divide between handwritten notes and digital data• Not easily searchable• Not easy to use by others
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Paper-Based System
• Notebooks not backed up• Damage to paper (spills, fading ink, etc)• Legibility issues
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As data become larger and a more valued research output, it will become harder to rely solely on a paper-based notebook
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ELNs
http://www.flickr.com/photos/24801682@N08/4117012787/ (CC BY)
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ELNs - Pros
• Add data files to ELN• View data files in ELN
• Searching• Linking between pages
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ELNs - Pros
• Sharing• Different access permissions by role• May be able to share across institutions
• Developing workflows• Read data from instruments directly• Built in testing
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ELNs - Pros
• Audit trail (provenance)• Revision history• eSignatures
• Range of customizability• Plugins• Drawing tools• Mobile versions
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ELNs - Cons
• Digital system• Bugs, upgrades, etc• Security and storage concerns• Limited access
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ELNs - Cons
• Usability in 10 years• Proprietary files• Unsettled ELN market
• Adjusting your workflow• Flexibility• Lack of desired features• User interface matters
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Here at Wisconsin
http://www.flickr.com/photos/teemu08/7398639848/ (CC BY-SA)
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UW-Madison ELN Pilot
• Tested 2 notebooks, CERF and eCAT• 55 users, majority never used an ELN before
• CERF• Pilot organizers liked this software• Did not live up to expectations in the lab• Did basic record keeping but other functionality disappointing
• eCAT• CALS installation supporting >30 people• Users found easy to use and liked interface• Users liked level of customization, though general template worked• Majority felt they kept better records than before
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UW-Madison ELN Pilot
• 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
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Future of ELNs on Campus
• Campus looking into purchasing software• Currently in progress
• Great place to start• Realize ultimate product won’t work for all
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Demonstrations
http://www.flickr.com/photos/seanstayte/378461236/ (CC BY-NC-SA)
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Demonstrations
• eCAT• CALS-supported installation from UW ELN pilot• Pilot testers liked this ELN • New version is called ‘Research Space’• Has limited free version which I will demo• http://www.researchspace.com/
• LabArchives• Was not part of pilot but an option that DoIT also looked into• Has limited free version which I will demo• http://www.labarchives.com/
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Demonstrations Caveat
• I am showing free versions of software• Free versions have limited features• Also data security and storage issues
• Great for testing• May need to test with fake data• Don’t plan to use free versions in long term
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Where To Go From Here?
http://www.flickr.com/photos/bulle_de/4672972586/ (CC BY)
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1. What Are Your Needs?
• Will you be doing lots of searching, sharing, or reuse?• Do you like the flexibility of a paper notebook?• Do you need a system for collaboration?• Do you need to protect your research notes for privacy reasons?• Will you be making a lot of drawings in your notes?
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1. What Are Your Needs?
• Will you be doing lots of searching, sharing, or reuse?• Do you like the flexibility of a paper notebook?• Do you need a system for collaboration?• Do you need to protect your research notes for privacy reasons?• Will you be making a lot of drawings in your notes?
Do you even need an ELN?
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2. How Much Does Discipline Matter?• Many flavors of ELNs• Different features by discipline
Rubacha, M.; Rattan, A. K.; Hosselet, S. C., A Review of Electronic Laboratory Notebooks Available in the Market Today. Journal of the Association for Laboratory Automation 2011, 16 (1), 9.
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3. What Resources Do You Have?
• Funding• Open source ELNs
• May require tech ability• Commercial ELNs
• Upward of $1000 /person /year• Many ELNs getting into academic market
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3. What Resources Do You Have?
• Hardware• Server• Cloud storage*
• Point person
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Minimum Requirements
http://www.flickr.com/photos/techbirmingham/167395997/ (CC-BY)
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What to Look for in Software
• Note taking and searching ability• Adding external files• Adding links between pages• Access permissions• Ability to export
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Provenance
• Way to create provenance• Audit trail• Lock pages once finished• Date stamps• Electronic signatures
• With provenance, ELNs acceptable for patents• Because of provenance, I don’t recommend• Blogs• Wikis• Note taking software
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Exporting Files
• No guarantee that current ELNs 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
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Test Software
• One ELN software package will not work for everyone• 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
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Future of ELNs
http://www.flickr.com/photos/simpologist/16734948/ (CC BY-NC)
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Future of ELNs
• ELNs will become the norm in research in the future• Graduates going into industry may be using ELNs now• May be 5-10 years before market coalesces• Enterprise ahead of academic market• Good product available now
• UW-Madison wants to help with this transition
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If You Want an ELN
• Identify needs• Test the software out before converting• If you adopt now, have an exit strategy
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Final Word
• Lots of benefits and some risks in adopting an ELN• Keeping a paper notebook has risks but they’re different• Will be a workflow change to adopt an ELN
• If risks too big, wait a few years
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Resources
• DoIT Academic Technologies• http://academictech.doit.wisc.edu/ideas/electronic-lab-notebooks
• Research Data Services• http://researchdata.wisc.edu/
• WARF• http://www.warf.org/
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Thanks
• Ebling Library• Trisha Adamus
• This presentation available under a Creative Commons Attribution 3.0 license