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RDA FAIR data managementNovember 14-15, 2016
FAIRness through a novel
combination of Web technologies
Dr. Erik Schultes
LCDS
RDA FAIR data managementNovember 14-15, 2016
Findable:
F1. (meta)data are assigned a globally unique
and persistent identifier;
F2. data are described with rich metadata;
F3. metadata clearly and explicitly include the
identifier of the data it describes;
F4. (meta)data are registered or indexed in a
searchable resource;
Accessible:
A1. (meta)data are retrievable by their identifier
using a standardized communications protocol;
A1.1 the protocol is open, free, and universally
implementable;
A1.2. the protocol allows for an authentication
and authorization procedure, where necessary;
A2. metadata are accessible, even when the
data are no longer available;
Interoperable:
I1. (meta)data use a formal, accessible,
shared, and broadly applicable language
for knowledge representation.
I2. (meta)data use vocabularies that follow
FAIR principles;
I3. (meta)data include qualified references
to other (meta)data;
Reusable:
R1. meta(data) are richly described with a
plurality of accurate and relevant attributes;
R1.1. (meta)data are released with a clear
and accessible data usage license;
R1.2. (meta)data are associated with
detailed provenance;
R1.3. (meta)data meet domain-relevant
community standards;
What is FAIR ?
RDA FAIR data managementNovember 14-15, 2016
FAIR is not a standard
FAIR is not equal to RDF
FAIR is not for humans only
FAIR is not equal to ‘Semantic Web’
FAIR is not equal to ‘Open’
What FAIR is not.
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
Data
Owners
Data
Consumers
3rd Party
Application
& Services
Data
Owners
Data
Consumers
3rd Party
Application
& Services
Interoperable
Data
Layer
FAIR Data Resources
datasets
ontologies
controlled vocabularies
taxonomies
…
FAIR Data applications
FAIR Data Point
FAIRifier
Data FAIRport
FAIR Data search engine
…
FAIR Data Protocol
FAIR Profiles
FAIR accessor
API spec
PIDs
LDP
…
Any task:
email, www, phone
SMTP, HTTP, RTP
TCP, UDP
Any medium:
Internet Protocol (IP)
ethernet, PPP
CMSA, async, sonet
copper, glass, radio
FAIR Data inspired by Internet
“Hourglass Architecture”
FAIR Data Resources
datasets
ontologies
controlled vocabularies
taxonomies
…
FAIR Data applications
FAIR Data Point
FAIRifier
Data FAIRport
FAIR Data search engine
…
FAIR Data Protocol
FAIR Profiles
FAIR accessor
API spec
PIDs
LDP
…
Any application:
make data actionable
Any data:
large volumes
heterogeneous
complex
FAIR Principles
uses existing technology
& standards
FAIR Data inspired by Internet
FAIR Data Resources
datasets
ontologies
controlled vocabularies
taxonomies
…
FAIR Data applications
FAIR Data Point
FAIRifier
Data FAIRport
FAIR Data search engine
…
FAIR Data Protocol
FAIR Profiles
FAIR accessor
API spec
PIDs
LDP
…
FAIR Data inspired by Internet
rces
aries
tions
t
ngine FAIR Data Protocol
FAIR Profiles
FAIR accessor
API spec
PIDs
LDP
…
• Easy part:
combines existing methods
& technology
• Hard Part:
ontology engineering &
data modeling
• Uptake:
primarily social challenge
(top down / bottom up)
• Internet of Data
• Open Science
RDA FAIR data managementNovember 14-15, 2016
FAIR data point specification
Release Beta 1.0
https://docs.google.com/document/d/1WZE9oTUn_aPSRZhOur1GjWZ5vYxLsKJQqzmpWMxNpcs/edit
metadata-controller
http://dev-vm.fair-dtls.surf-hosted.nl:8082/fdp/swagger-ui.html
FAIR data point API
FAIR Data Point
@prefix dcat: <http://www.w3.org/ns/dcat#> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix lang: <http://id.loc.gov/vocabulary/iso639-1/> .
@prefix fdpo: <http://www.dtls.nl/ontologies/fdpDummy/> .
@prefix ldp: <http://www.w3.org/ns/ldp#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix fdp: <http://localhost/fdp/> .
<> dct:title "RD connect FAIR data point(beta)" ;
dct:language lang:en;
ldp:contains fdp:textmining ;
dct:identifier "rdc-fdp" ;
rdfs:label "RD connect FAIR data point(beta)" ;
dct:description "This FDP provides metadata on textmining data sets." ;
dct:title "DTL FAIR data point(beta)";
dct:license <http://rdflicense.appspot.com/rdflicense/cc-by-nc-nd3.0>;
dct:hasVersion "0.1";
dct:publisher <http://orcid.org/0000-0002-1215-167X>;
fdpo:contact <http://orcid.org/0000-0002-1215-167X>;
fdpo:APIVersion "0.1 Beta" .
RDA FAIR data managementNovember 14-15, 2016
FAIR Data Point
Catalog 1
API
DATASET 1
DIST 1
Catalog 2
DATASET 2 DATASET 3
DIST 2 DIST 3 DIST 4 DIST 5
RDA FAIR data managementNovember 14-15, 2016
FDP
title
language
identifier
label
description
license
version
publisher
contant
API version
Catalog
label
title
identifier
language
version
Dataset
title
label
identifier
language
version description
keywords
landingpage
publisher
theme
creator
Distribution
title
label
identifier
version
license
access url
mediatype
FAIR Data Point Metadata
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
inhibitors p65
RDA FAIR data managementNovember 14-15, 2016
FAIR Data Query
Siri?
Yes, master!
Please find me all known low molecular weight inhibitors of
the Human p65 Protein. Please separate the list based on
those that were found in curated databases, and those that
were found in self-deposited data archives. Also, keep
track of the license and citation information for each one. If
you find data that is relevant, but not public, please provide
me with the contact information for the person I need to
request the data from.
Mark D. Wilkinson
CBGP-UPM/INIA, Madrid
RDA FAIR data managementNovember 14-15, 2016
FAIR
for data
RDA FAIR data managementNovember 14-15, 2016
P
R
I
M
E
D
FAIR
for algorithms
for data
RDA FAIR data managementNovember 14-15, 2016
FAIR Data Training
Track 1: Awareness building
- Problems & Responsibilities
- What is data stewardship ?
- What is FAIR ?
Track 2: Skill building
- BYOD for data
- FAIR Hackathons for applications
- Data stewardship planing hackathons
http://www.dtls.nl/fair-data/fair-data-training/
3
PRESENTERS
https://www.youtube.com/watch?v=sSQPY5Mc5Rs
RDA FAIR data managementNovember 14-15, 2016
The NAR online Molecular Biology Database Collection
has been updated with the addition of 88 new
resources and removal of 23 obsolete websites, which
brought the current listing to 1685 databases.
BYOD
RDA FAIR data managementNovember 14-15, 2016
Five FAIR Use Cases
Andrew Stubbs
David van Enckevort
Jildau Bouwman
Arie Baak
born FAIR
https://www.youtube.com/watch?v=hioPJzTsdtg
FAIR Hackathon
becoming FAIR
not yet FAIR
Derk Arts
FAIRness
RDA FAIR data managementNovember 14-15, 2016
Bedankt
RDA FAIR data managementNovember 14-15, 2016
1. FAIR Principles address barriers to data
reuse.
2. FAIR Principles stand on the shoulders of
giants. FAIR technology is largely
combinations of existing technology.
3. FAIR Enough! There are easy ways to make
any dataset ‘more FAIR’.
4. In FAIR, no one is a follower, everyone is a
collaborator.
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
RDA FAIR data managementNovember 14-15, 2016
https://vimeo.com/138977162
http://www.dtls.nl/events/personal-health-train-workshop/
Personal Health Train
RDA FAIR data managementNovember 14-15, 2016
kinds of data
- files (excel)
- databases
- document base (database of files)
- repositories
- streaming data

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FAIRness through a novel combination of Web technologies

  • 1. RDA FAIR data managementNovember 14-15, 2016 FAIRness through a novel combination of Web technologies Dr. Erik Schultes LCDS
  • 2. RDA FAIR data managementNovember 14-15, 2016 Findable: F1. (meta)data are assigned a globally unique and persistent identifier; F2. data are described with rich metadata; F3. metadata clearly and explicitly include the identifier of the data it describes; F4. (meta)data are registered or indexed in a searchable resource; Accessible: A1. (meta)data are retrievable by their identifier using a standardized communications protocol; A1.1 the protocol is open, free, and universally implementable; A1.2. the protocol allows for an authentication and authorization procedure, where necessary; A2. metadata are accessible, even when the data are no longer available; Interoperable: I1. (meta)data use a formal, accessible, shared, and broadly applicable language for knowledge representation. I2. (meta)data use vocabularies that follow FAIR principles; I3. (meta)data include qualified references to other (meta)data; Reusable: R1. meta(data) are richly described with a plurality of accurate and relevant attributes; R1.1. (meta)data are released with a clear and accessible data usage license; R1.2. (meta)data are associated with detailed provenance; R1.3. (meta)data meet domain-relevant community standards; What is FAIR ?
  • 3. RDA FAIR data managementNovember 14-15, 2016 FAIR is not a standard FAIR is not equal to RDF FAIR is not for humans only FAIR is not equal to ‘Semantic Web’ FAIR is not equal to ‘Open’ What FAIR is not.
  • 4. RDA FAIR data managementNovember 14-15, 2016
  • 5. RDA FAIR data managementNovember 14-15, 2016
  • 6. RDA FAIR data managementNovember 14-15, 2016
  • 9. FAIR Data Resources datasets ontologies controlled vocabularies taxonomies … FAIR Data applications FAIR Data Point FAIRifier Data FAIRport FAIR Data search engine … FAIR Data Protocol FAIR Profiles FAIR accessor API spec PIDs LDP … Any task: email, www, phone SMTP, HTTP, RTP TCP, UDP Any medium: Internet Protocol (IP) ethernet, PPP CMSA, async, sonet copper, glass, radio FAIR Data inspired by Internet “Hourglass Architecture”
  • 10. FAIR Data Resources datasets ontologies controlled vocabularies taxonomies … FAIR Data applications FAIR Data Point FAIRifier Data FAIRport FAIR Data search engine … FAIR Data Protocol FAIR Profiles FAIR accessor API spec PIDs LDP … Any application: make data actionable Any data: large volumes heterogeneous complex FAIR Principles uses existing technology & standards FAIR Data inspired by Internet
  • 11. FAIR Data Resources datasets ontologies controlled vocabularies taxonomies … FAIR Data applications FAIR Data Point FAIRifier Data FAIRport FAIR Data search engine … FAIR Data Protocol FAIR Profiles FAIR accessor API spec PIDs LDP … FAIR Data inspired by Internet
  • 12. rces aries tions t ngine FAIR Data Protocol FAIR Profiles FAIR accessor API spec PIDs LDP … • Easy part: combines existing methods & technology • Hard Part: ontology engineering & data modeling • Uptake: primarily social challenge (top down / bottom up) • Internet of Data • Open Science
  • 13. RDA FAIR data managementNovember 14-15, 2016 FAIR data point specification Release Beta 1.0 https://docs.google.com/document/d/1WZE9oTUn_aPSRZhOur1GjWZ5vYxLsKJQqzmpWMxNpcs/edit metadata-controller http://dev-vm.fair-dtls.surf-hosted.nl:8082/fdp/swagger-ui.html FAIR data point API
  • 14. FAIR Data Point @prefix dcat: <http://www.w3.org/ns/dcat#> . @prefix dct: <http://purl.org/dc/terms/> . @prefix lang: <http://id.loc.gov/vocabulary/iso639-1/> . @prefix fdpo: <http://www.dtls.nl/ontologies/fdpDummy/> . @prefix ldp: <http://www.w3.org/ns/ldp#> . @prefix xsd: <http://www.w3.org/2001/XMLSchema#> . @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> . @prefix fdp: <http://localhost/fdp/> . <> dct:title "RD connect FAIR data point(beta)" ; dct:language lang:en; ldp:contains fdp:textmining ; dct:identifier "rdc-fdp" ; rdfs:label "RD connect FAIR data point(beta)" ; dct:description "This FDP provides metadata on textmining data sets." ; dct:title "DTL FAIR data point(beta)"; dct:license <http://rdflicense.appspot.com/rdflicense/cc-by-nc-nd3.0>; dct:hasVersion "0.1"; dct:publisher <http://orcid.org/0000-0002-1215-167X>; fdpo:contact <http://orcid.org/0000-0002-1215-167X>; fdpo:APIVersion "0.1 Beta" .
  • 15. RDA FAIR data managementNovember 14-15, 2016 FAIR Data Point Catalog 1 API DATASET 1 DIST 1 Catalog 2 DATASET 2 DATASET 3 DIST 2 DIST 3 DIST 4 DIST 5
  • 16. RDA FAIR data managementNovember 14-15, 2016 FDP title language identifier label description license version publisher contant API version Catalog label title identifier language version Dataset title label identifier language version description keywords landingpage publisher theme creator Distribution title label identifier version license access url mediatype FAIR Data Point Metadata
  • 17. RDA FAIR data managementNovember 14-15, 2016
  • 18. RDA FAIR data managementNovember 14-15, 2016 inhibitors p65
  • 19. RDA FAIR data managementNovember 14-15, 2016 FAIR Data Query Siri? Yes, master! Please find me all known low molecular weight inhibitors of the Human p65 Protein. Please separate the list based on those that were found in curated databases, and those that were found in self-deposited data archives. Also, keep track of the license and citation information for each one. If you find data that is relevant, but not public, please provide me with the contact information for the person I need to request the data from. Mark D. Wilkinson CBGP-UPM/INIA, Madrid
  • 20. RDA FAIR data managementNovember 14-15, 2016 FAIR for data
  • 21. RDA FAIR data managementNovember 14-15, 2016 P R I M E D FAIR for algorithms for data
  • 22. RDA FAIR data managementNovember 14-15, 2016 FAIR Data Training Track 1: Awareness building - Problems & Responsibilities - What is data stewardship ? - What is FAIR ? Track 2: Skill building - BYOD for data - FAIR Hackathons for applications - Data stewardship planing hackathons http://www.dtls.nl/fair-data/fair-data-training/
  • 24. RDA FAIR data managementNovember 14-15, 2016 The NAR online Molecular Biology Database Collection has been updated with the addition of 88 new resources and removal of 23 obsolete websites, which brought the current listing to 1685 databases. BYOD
  • 25. RDA FAIR data managementNovember 14-15, 2016 Five FAIR Use Cases Andrew Stubbs David van Enckevort Jildau Bouwman Arie Baak born FAIR https://www.youtube.com/watch?v=hioPJzTsdtg FAIR Hackathon becoming FAIR not yet FAIR Derk Arts FAIRness
  • 26. RDA FAIR data managementNovember 14-15, 2016 Bedankt
  • 27. RDA FAIR data managementNovember 14-15, 2016 1. FAIR Principles address barriers to data reuse. 2. FAIR Principles stand on the shoulders of giants. FAIR technology is largely combinations of existing technology. 3. FAIR Enough! There are easy ways to make any dataset ‘more FAIR’. 4. In FAIR, no one is a follower, everyone is a collaborator.
  • 28. RDA FAIR data managementNovember 14-15, 2016
  • 29. RDA FAIR data managementNovember 14-15, 2016
  • 30. RDA FAIR data managementNovember 14-15, 2016
  • 31. RDA FAIR data managementNovember 14-15, 2016
  • 33. RDA FAIR data managementNovember 14-15, 2016 kinds of data - files (excel) - databases - document base (database of files) - repositories - streaming data