Published on May 16, 2014
The future of experimental data: Libraries and Laboratory Notebooks USTLG Meeting Promoting the role of libraries, library services and librarians Jeremy Frey 16 May 2014 1
16/05/2014 The future of laboratory data 2
Outline • Introduction • Open Access vs Intelligent Access to Data • The Trove Software • Digital Notebooks - Advantages • Data Citation • The Future and labs and data 16/05/2014 The future of laboratory data 3
University of Southampton Library Resources 16/05/2014 The future of laboratory data 4
Open Data 16/05/2014 The future of laboratory data 5
Review Article Laboratory notebooks in the digital era: the role of ELNs in record keeping for chemistry and other sciences Colin L. Bird, Cerys Willoughby and Jeremy G. Frey Chem. Soc. Rev., 2013,42, 8157-8175 DOI: 10.1039/C3CS60122F This article is licensed under a Creative Commons Attribution 3.0 16/05/2014 The future of laboratory data 6
Data Curation in the Chemical Sciences 16/05/2014 The future of laboratory data 7 http://dx.doi.org/10.3789/isqv25no3.2013.02
Subversive and furtive sharing & exploitation of data in virtual space RDF OAI Taxi E- user Labs Digital Repository Data 16/05/2014 The future of laboratory data Some projects need large amounts of data from the literature 8
16/05/2014 The future of laboratory data 9
Intelligent Open Access to Data The future of laboratory data16/05/2014 10
StructureGate 16/05/2014 The future of laboratory data 11
THE NARRATIVE What is the story? What is the why? 16/05/2014 The future of laboratory data 12
Faraday’s laboratory notebooks are also remarkable in the amount of detail that they give about the design and setting up of experiments, interspersed with comments about their outcome and thoughts of a more philosophical kind. All are couched in plain language, with many vivid phrases of delightful spontaneity…. Peter Day, ‘The Philosopher’s Tree: A Selection of Michael Faraday’s Writings’ 16/05/2014 The future of laboratory data 13
The integrity of science as a discipline rests on the ability of scientists to reproduce the claims of others. While none of the organic chemistry journals go to the same lengths as Organic Syntheses, where each procedure must be reproduced as described in an independent laboratory before publication, …….. sufficient detail so that the procedures can be reproduced and provide sufficient data to establish the structures ……. This information is necessary for the review process …… to base their experiments on published work.Methods are as important as the data 16/05/2014 The future of laboratory data 14
16/05/2014 The future of laboratory data If only I knew exactly how she did this experiments I know all this supplementary information could be useful but will people really remember the format? Is it worth all the hassle?I wish I could get the numbers from this graph - the pdf is not much use. I wish I had recorded things at the start the way I do now….. Typical Laboratory 15
Archiving of data • Experiments are often repeated – Data stored locally on a computer and can’t be found – Handwriting can’t be read – Laboratory notebooks lost or damaged – Correct data not recorded first time round http://www.ecs.soton.ac.uk/regenesis/pictures 16/05/2014 The future of laboratory data 16
16/05/2014 The future of laboratory data The Trove Software 17
16/05/2014 The future of laboratory data 18
BlogMyData Project - Godiva 16/05/2014 The future of laboratory data 19
LabTrove and User defined metadata 16/05/2014 The future of laboratory data 20
A big proportion of our users are not really adding metadata! Librarians can help here! 16/05/2014 The future of laboratory data 21
Figure 7. Visualization of posts as a network of resources. Milsted AJ, Hale JR, Frey JG, Neylon C (2013) LabTrove: A Lightweight, Web Based, Laboratory “Blog” as a Route towards a Marked Up Record of Work in a Bioscience Research Laboratory. PLoS ONE 8(7): e67460. doi:10.1371/journal.pone.0067460 http://www.plosone.org/article/info:doi/10.1371/journal.pone.0067460 16/05/2014 The future of laboratory data 22
Electronic Laboratory Notebooks ELNs Comparison with traditional paper notebooks Communication Collaboration Sharing Linking Curating • Higher Quality Record • Natural linking to data and external resources • Easier Collaboration • Improved planning • Improved discussions • Efficiency gain in production of presentations/reports • Change the nature of Professor/Student interactions Impact on researchers 16/05/2014 The future of laboratory data 23
DATA CITATION Supplementary data linked to laboratory notebooks 16/05/2014 The future of laboratory data 24
doi: 10.1098/rsta.2005.1630 Phil. Trans. R. Soc. A 15 August 2005 vol. 363 no. 1833 2075-2095 16/05/2014 The future of laboratory data 25
Kenji Takeda, Graeme Earl, Jeremy Frey, Simon Keay, and Alex Wade Enhancing research publications using Rich Interactive Narratives Phil. Trans. R. Soc. A. 2013 371 20120090; doi:10.1098/rsta.2012.0090 16/05/2014 The future of laboratory data Use of Deep Zoom technique Data covers a huge range of scale and type New ideas for presenting to avoid overload 26
http://royalsocietypublishing.org/content/371/1983/20120090.jnl_roysco_tab_art Use of Deep Zoom technique 16/05/2014 The future of laboratory data 27
Select entries (all) Export as HTML “static” copy Zip and send to repository LabTrove Notebooks 16/05/2014 The future of laboratory data 28
Chemical Biology Paper in PLoS • Export of the entire laboratory notebook (LabTrove) and deposit with FigShare. • At 50 Mb it exceeded the upload limit of the journal! 16/05/2014 The future of laboratory data 29
http://ses.library.usyd.edu.au/handle/2123/10461 Example from Mat Todd University of Sydney 16/05/2014 The future of laboratory data 30
16/05/2014 The future of laboratory data 31 DataCite DOI
Open Notebook Science • Certainly not always the way to work! – IPR, Commercial, long term projects, recognition issues, etc • But – Makes connection much easier if the data and processes are “Open” – Easy to export & access of “Linked-Data” 16/05/2014 The future of laboratory data It is not necessary to change. Survival is not mandatory. W. Edwards Deming 32
16/05/2014 The future of laboratory data LabTrove Open Notebooks Mat Todd’s Malaria Project 33
DATA EXPLOSION CRYSTALLOGRAPHY E- CRYSTALS Built on the ePrints system used at Southampton as a repository for research outputs 16/05/2014 The future of laboratory data 34
Unavailable Information • Not just lots of data but why are many of the structures unpublished so certainly unavailable? • The E-Crystals and E-Bank Project looked at how to address this issue • Is making data available the same as depositing a copy with someone else? 16/05/2014 The future of laboratory data 35
16/05/2014 The future of laboratory data Graph/Network provides intuitive navigation 36
DISSEMINATION IS PART OF THE RESEARCH Bringing dissemination in to the lab… use and re-use of data… the digital research notebook 16/05/2014 The future of laboratory data 37
Change in the whole way we design and build 16/05/2014 The future of laboratory data 3D Printers: A radical change to the experimental section of a paper! 38
All I am saying is that now is the time to develop the technology to deflect an asteroid We must speed up the knowledge discovery process 16/05/2014 The future of laboratory data 39
IT as a Utility funded under Research Council UK's Digital Economy theme The Digital Economy vision is of the transformational impact of digital technologies on all aspects of life. 16/05/2014 The future of laboratory data 40
Join the ITaaU Network+ • Web: www.itutility.ac.uk • Mailing list: http://jiscmail.ac.uk/itutility • Hashtag #itaaun • Twitter: SteveITaaU • Facebook page: http://www.facebook.com/ITutilityNetwork • Email: email@example.com • LinkedIn group: IT-as-Utility-Network 16/05/2014 The future of laboratory data 41 ITaaU Network meeting 19 & 20th June Southampton Hilton
Trust me Mort - no electronic communications superhighway, no matter how vast and sophisticated, will ever replace the art of the schmooze Thank you for listening The future of laboratory data16/05/2014 42
How organisms adapt and survive in different environment.
Aplicación de ANOVA de una vía, modelo efectos fijos, en el problema de una empres...
Libros: Dra. Elisa Bertha Velázquez Rodríguez
In this talk we describe how the Fourth Paradigm for Data-Intensive Research is pr...
... Boston Library Consortium, etc. ... data, DSpace, etc. for. ... Ask us Research guides & expert librarians Productivity tools Scholarly publishing ...
For librarians Product and access information; For societies Get the most out of publishing with us; For authors Resources and online services; Open Access
... their school librarians and school library media ... Digital Playground, De las ... take place in the school library media center, the laboratory ...
Librarian Career Information and Job Description. The role of a library is evolving from that of a location where paper records or books can be accessed to ...
A teacher-librarian ... Web sites; digital video ... before they are permitted to work as teacher-librarians, and often additional library science ...
Tips from the Experts ... Using a Visioning Event to Chart a Library's Future ... electronic laboratory notebooks are a form of data curation.
Wellcome Library. 183 Euston Road London NW1 2BE. Map and directions +44 (0)20 7611 8722 firstname.lastname@example.org. Twitter @WellcomeLibrary. Visit us on ...