The FAIR Cookbook
datareadiness.eng.ox.ac.uk
UK Conference of Bioinformatics and Computational Biology, 29-30 Sep 2021
Philippe Rocca-Serra, PhD
Group Coordinator & co-Investigator, OeRC;
Associate Member of Faculty, Engineering
Science, University of Oxford
ORCiD: 0000-0001-9853-5668
Twitter: @Phil_at_OeRC
Susanna-Assunta Sansone, PhD
Associate Director, OeRC;
Associate Professor, Engineering Science,
University of Oxford
ORCiD: 0000-0001-5306-5690
Twitter: @SusannaASansone
On behalf of the FAIR Cookbook Authors

FAIR
Cookbook
A guided tour to
a live resource
https://fairplus.github.io/the-fair-cookbook/content/home.html

The FAIR Cookbook
What is it?
An online, ‘live’ resource
for the life sciences
A collection of recipes
that cover the operation
steps of FAIR data
management
Who is it for?
Anyone who needs
practical assistance in
their FAIRification
journey or creates FAIR
guidance and
educational material
Who developed it?
Researchers and data
managers professionals
in the life sciences, from
academia and industry
Including ELIXIR
members

Motivations and ambitions
beyond the hype
Large body of generic FAIR
guidance
Motivations
Non-specific guidance for
the life sciences
Ambitions
Target specific situations to deliver a guide with
applied examples
Join academia and industry forces to make the
case for FAIR data management
Build capacity for high quality data
management in the private and public sectors

Learning objectives
Learn how to improve the FAIRness with exemplar datasets
Understand the levels and indicators of FAIRness
Discover open source technologies, tools and services
Find out the required skills
Acknowledge the challenges

Who is the Cookbook user?
Researchers, Data
Scientists, Principal
Investigators
Data Managers, Data
Stewards, Data Curators
Software Developers,
Terminology
Managers
Policymakers,
Funders, Trainers

Aim (target FAIR indicators)
F1. (Meta)data are assigned a
globally unique and persistent
identifier
A1. (Meta)data are retrievable
by their identifier using a
standardised communications
protocol

A combination of guidance, technical, hands-on, background
and review types to cover the operational steps of FAIR data
management
8
2
16
5
4
2
9
Findability
Accessibility
Interoperability
Reusability
Infrastructure
Assessment
Applied examples
The recipes, the chapters

Looking for benchmark, or
how to get started
We provided an introduction
to FAIR data to a team, that
now want to integrate a few
datasets into a knowledge
graph to support a specific
analysis.
They need to build an
application ontology to
support this.
How do they get started?

Where is the value?
Step by step process
Guidelines, process, description
References
What should I read next?
Ingredients
An idea of tools/skills needed
Examples
Practical
elements, code
snippets
#Python3
#zooma-annotator-script.py
file
def
get_annotations(propertyTy
pe, propertyValues, filters =
""): "””
Get Zooma annotations for
the values of a given
property of a given type.
""”
import requests
annotations = []
no_annotations = []

1. Recipe Summary card
2. Visual overview
3. Executable code (nice to have)
https://w3id.org/faircookbook/FCB006
Aim (target FAIR indicators)

The FAIRness of the Cookbook
Findability
Sitemap.xml, JSON-LD
Markup with Schema.org,
Bioschemas
w3id.org unique persistent
identifiers for each recipe
ORCID for authors
Accessibility
HTTPS protocol
Interoperability
JSON-LD markup
Cross-links to objects in other
registries
incl. Biotools (tools)
FAIRsharing (repositories, standards)
CreDiT attribution ontology
Reusability
CC BY 4.0 license for all
content

How to contribute with some
development to the wider public

New recipe request

Become part of a
community of FAIR experts!
1Identify a chapter and a topic
Findability Accessibility Interoperability Reusability
Infrastructure Applied examples Assessment
2 Choose a way of contributing and see our guidelines
Google Docs
HackMD
Git
Markdown cheat sheet
Get recipe template
Tips and tricks
Submit an
outline
3
You can
discuss it
with the
Editorial
Board

Contributors to date
+50 life sciences professionals, researchers and data managers
FARIplus
partners
Industry
+
Academia
ELIXIR
Nodes
represented

Coordinators and editors
we are here to help
Content prioritisation
Identification of topics
Review of drafts
Call for contributions
Monthly book-dash
events
Pre-defined focus areas
Breakout on topics
Housekeeping
Technical platform
Website
Editorial Board Sections Board
The newly
developed
sections board
assists the
editorial board

Where is the value?
Understand how a resource can fit in different
contexts
Have a way to share resources, as to externalise
maintenance (keep them alive)
Potentially find synergies with other
recipes/components

The roadmap,
our steps
concept prototype product
Improvement/
growth
RECIPES
PLATFORM
SUSTAINABILITY PLAN
ETHICAL VALUES

ELIXIR
ecosystem
e.g. RDMkit,
FAIRsharing,
FAIRassist
Pistoia Alliance’s
FAIR Toolkit
Anchoring it to
the FAIRification
process, via a
FAIR wizard
Tagging them
with
Terms4FAIRskill
terminology
Embed it into the
planned ELIXIR
Knowledge Hub
Monthly book
dashes and
continued releases
Planned session at
ELIXIR All Hands,
June 2021
Community
growth
Cross-links
with resources
Enhance
searchability
Embed it into
sustainable
plans
A live ever-growing resource

Start using the
FAIR Cookbook
Help us to help you,
this is a user-
oriented resource
Join a network
of FAIR experts
Share and broaden
your expertise,
joining our journey
Contribute
according to
your needs
Create and review,
or signpost gaps and
needs
Benefit from the
power of the
FAIR community
Become a recognised
expert, enlarge your
network
Recommend it
in your guidance
and training
material
For everyone
The roadmap,
your steps
use it join it
adopt it
leverage it

Start using the
FAIR Cookbook
Help us to help you,
this is a user-
oriented resource
Join a network
of FAIR experts
Share and broaden
your expertise,
joining our journey
Contribute
according to
your needs
Create and review,
or signpost gaps and
needs
Benefit from the
power of the
FAIR community
Become a recognised
expert, enlarge your
network
Recommend it
in your guidance
and training
material
For everyone
use it join it
adopt it
leverage it
Included
in the
new
version =>

Watch the
webinar with a
full presentation
elixir-europe.org/events/fairplus-webinar-discovering-fair-cookbook

Thanks to
Editorial Board
Section Editors
FAIRplus partners
All bookdashes’ participants
All authors
fairplus-
cookbook@elixir-
europe.org
https://fairplus.github.i
o/the-fair-cookbook
@FAIRplus @FAIRplus_EU
Wei Gu,
ELIXIR-LU,
Luxembourg
Robert
Giessmann,
Bayer
Philippe
Rocca-Serra
ELIXIR-UK
Oxford
Andrea
Splendiani,
Novartis
Tony
Burdett,
ELIXIR-EBI,
EBI
Susanna
Sansone,
ELIXIR-UK
Oxford