Presented at the FAIR Data in Practice Symposium, 16 may 2023 at BioITWorld Boston. https://www.bio-itworldexpo.com/fair-data. The ELIXIR European research Infrastructure for life science data is an inter-governmental organizations coordinating, integrating and sustaining FAIR data and software resources across its 23 nations. To help advise users, data stewards, project managers and service providers, ELIXIR has developed complementary community-driven, open knowledge resources for guiding FAIR Research Data Management (RDMkit) and providing FAIRification recipes (FAIRCookbook). 150+ people have contributed content so far, including representatives of the pharmaceutical industry.

1. www.elixir-europe.org
www.elixir-europe.org
The ELIXIR FAIR Knowledge Ecosystem
for Practical Know-How:
RDMkit and FAIRCookbook
Carole Goble, University of Manchester, UK
ELIXIR UK Head of Node
Philippe Rocca-Serra, University of Oxford, UK
https://www.bio-itworldexpo.com/fair-data

2. ELIXIR: The European Research Infrastructure for
Life Science Data
23
Nodes
220+
Orgs
Towards a federated digital infrastructure for Life
Science Data, coordinating national capabilities
Data & software FAIR and open as possible
Transnational access and analysis
Sensitive data
Gateway to Communities of Practice, European and
Global initiatives, Standards Bodies
Coordinate joint funding actions and participations
Hub
https://elixir-europe.org

3. FAIR is at the heart
Wilkinson, M., Dumontier, M., Aalbersberg, I. et al. The FAIR Guiding Principles for scientific data management and stewardship. Sci Data 3, 160018 (2016). https://doi.org/10.1038/sdata.2016.1
Barker, M., Chue Hong, N.P., Katz, D.S. et al. Introducing the FAIR Principles for research software. Sci Data 9, 622 (2022). https://doi.org/10.1038/s41597-022-01710-x
Data
Software
Digital Objects

4. Bioscience communities FAIR RDM know-how
Systems
Biology
Single
Cell
omics
Biodiversity
Microbiome
Cancer
Health
Data
Machine
Learning
Bio
Curation
Infectious
Disease
RDM
Cross-cutting &
general
Specialised &
community
specific

5. FAIR Research Data and Software is at the heart
An ecosystem of FAIR
services, platforms and
resources
Activities and
methodologies for FAIR
awareness, review,
assistance and
implementation
Registries
Trusted
Repositories
RDMTools
FAIR
Services
RDM
Platforms
Methodologies
Training
Stewardship
Analysis
Metadata
Platform

6. FAIR Research Data and Software Collaborators

7. Practical know-how
Knowledge sharing & dissemination
Smart navigating the registries and
repositories landscape
Relevant to bio-scientists and
related trades
General and specialist
Bioscientists
Researchers
Data Stewards
Research Software
Engineers
Investigators,
Lab Managers, Project
Coordinators
Funders,
Policy Makers,
Budget holders,
Managers

8. FAIR Knowledge Ecosystem
RDMTools
Registries
Repositories
Training
RDM Platforms
Data Stewardship & RSE networks
https://rdmkit.elixir-europe.org
Guidance for RDM services
Recipes for FAIR data
https://faircookbook.elixir-europe.org/ https://ds-wizard.org/

9. Guidance on the
Research Data Management support landscape
A web-based toolkit
for the bioscience community
written by the bioscience community
https:/rdmkit.elixir-europe.org

11. Interconnected pages, indexed registry entries, links to tools

12. Specialised data management
Written by expert networks

13. A collection of recipes by the bioscience community that cover the
specific operation steps of FAIR data management.
Pre-print: https://doi.org/10.5281/zenodo.7156792 (in press at Nature’s Scientific Data)
Ingredients
An idea of tools/skills needed
Step by step process
Guidelines, process, description
Practical elements,
code snippets
#Python3
#zooma-annotator-script.py
file
def
get_annotations(propertyTy
pe, propertyValues, filters =
""): "
Examples
Conclusions
What should I read next?
Anatomy of a recipe
Different levels of granularity
https://faircookbook.elixir-europe.org

14. Includes guidance on data FAIRification pipelines and insights
into the impact on FAIR maturity of your datasets
https://w3id.org/faircookbook/FCB079
https://fairplus.github.io/Data-Maturity
How far am I in my
FAIR journey
Is my dataset FAIR?
How to make it FAIR?

15. http://bit.ly/FAIRplusNewProcess
My lab has datasets - what do I need to do to make them FAIR?
https://w3id.org/faircookbook/FCB079

16. Commercial Contributors
https://faircookbook.elixir-europe.org/content/recipes/afterword/people.html

17. Linking together - what identifiers for data should I be using?

18. FAIR knowledge is in demand
USA is top
143+ countries
Both recommended by
EC programmes and
multiple national
funders

19. Crowd contributed
Full author credit
Clear contribution processes
Encourage networks to contribute

20. Simple Sustainable Platforms,
Community owned & Open Governance
Editorial Boards (NIH ODSS
representation)
Open meetings
Hackathons & Refreshes
Simple platform
• Git (RDMkit)
• Jupyter Book (FAIRCookbook)
Open licenses for content and platform
• CC-BY-4.0 license.

21. Alliance
https://rdmkit.elixir-europe.org/rdmkit_alliance
Advise on how to adopt, use, reuse,
attribute and contribute to the
components, content and practices
Forum to manage sustainability and
governance
Enable all stakeholders to engage.

22. Summary: FAIR Knowledge Ecosystem for
Practical Know-How
So much FAIR know-how and so many services and resources.
Essential to have toolkits and cookbooks to navigate and for
context, understanding and tactics.
Living resources with content, governance and management
by the community for the community.
Open. You are welcome to use and join.

23. Funding Acknowledgements
Grant agreement ID: 802750
https://fairplus-project.eu/
Grant agreement ID: 871075
https://elixir-europe.org/
https://rdmkit.elixir-europe.org https://faircookbook.elixir-europe.org/