rda webinar - biosharing - mapping the landscape of data standards, repositories and policies - use...
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WebinarMapping the landscape of data standards, data repositories and
data policies: Use case – The Life Sciences (biomed, agri, environ)
Peter McQuilton, PhD
On behalf of the joint RDA/Force11 BioSharing WG
What were the aims of the RDA/Force11 BioSharing WG
• To develop guidelines for linking information on databases, content standards and journal and funder data policies in the life sciences
• To develop a curated registry (running since 2011),to access and cross-search this information, suchthat a variety of stakeholders can make decisionson which standards and databases to use orendorse
https://www.biosharing.org
What were the aims of the RDA/Force11 BioSharing WG
• To develop guidelines for linking information on databases, content standards and journal and funder data policies in the life sciences
• To develop a curated registry (running since 2011),to access and cross-search this information, suchthat a variety of stakeholders can make decisionson which standards and databases to use orendorse
https://www.biosharing.orghttps://www.FAIRsharing.org
In preparation over the summer
• A web-based, curated and searchable portal that monitors the
development and evolution of standards, their use in
databases and the adoption of both in data policies,
to inform and educate
Data policies Databases
Content standards
Formats Terminologies Guidelines
Models/Formats = Conceptual
model, conceptual schema,
exchange formats
Terminologies = Controlled
vocabularies, taxonomies,
thesauri, ontologies etc.
Guidelines = Minimum information
reporting requirements, checklists
Mapping a complex and evolving landscape
Content standards
Data policies Databases
Formats Terminologies Guidelines
By grass-roots
groups, e.g.:By standard
organizations, e.g.:
Mapping a complex and evolving landscape
Formats Terminologies Guidelines
225
115
554
source sourcesource
MIAME
MIRIAMMIQAS
MIXMIGEN
ARRIVEMIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
SRAxml
SOFT FASTA
DICOM
MzMLSBRML
SEDML…
GELML
ISA
CML
MITAB
AAO
CHEBIOBI
PATO ENVO
MOD
BTO
IDO…
TEDDY
PRO
XAO
DO
VO
Content standards in numbers
Statistics as of May 2017
Understanding how standards are used
Guideline
Understanding how standards are used
Formats
Guideline
Understanding how standards are used
Formats
Guideline
Formats
Understanding how standards are used
Formats
Guideline
Formats
Terminology
Understanding how standards are used
My funder’s data policy recommends the use of established standards, but which are widely endorsed and applicable to my crop data?
Am I using the most up-to-date version of this terminology to annotate cell-based assays?
I understand this format has been deprecated; what has it been replaced by and is it appropriate for this data?
Which are the mature standardsand standards-compliant databasesthat we should recommend to our authors?
Helping users make the right decision
Training
Linking standards and databases to training material
Ready for use, implementation, or recommendation
In development
Status uncertain
Deprecated as subsumed or superseded
Manually curated and verified
by the community behind each
resource
Mapping a complex and evolving landscape – indicators of status
Collections group together one or
more types of resource by
domain, project or organization.
Recommendations are a core-set
of resources that are selected and
recommended by a funder or
journal data policy.
All collections and
recommendations created
between BioSharing and the
collection/recommendation
owner.
Grouping records
Data Policy
Visualizing relationships
“The interactive browser will allow us to discover which databases and editorial standards are not currently included in our author guidelines, enabling us to regularly monitor and refine our policies as appropriate, in support of our mission to help our authors enhance the reproducibility of their work.” – Holly, F1000
Collections group together one or
more types of resource by
domain, project or organization.
Recommendations are a core-set
of resources that are selected and
recommended by a funder or
journal data policy.
All collections and
recommendations created
between BioSharing and the
collection/recommendation
owner.
Grouping records
Standard developing groups:Journal, publishers:
Cross-links, data exchange:
Societies and organisations: Institutional RDM services:
Projects, programmes:
Working with the community/adopters
Acknowledgements
Thank-you!Any questions?
Biosharing-contact-us@lists.sf.net
Acknowledgements
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