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Using community-defined metadata standards in the
FAIR principles: how BioSharing helps
Peter McQuilton, PhDBioSharing Content Lead
https://www.biosharing.org@biosharing
Joint meeting: IG ELIXIR Bridging Force and WG BioSharing RegistryInternational Data Week, RDA, Denver, 16th September, 2016
de jure de facto
grass-rootsgroups
standard organizations
Nanotechnology Working Group
Community mobilisation to develop content standards
Formats Terminologies Guidelines
207
106
346
miameMIAPA
MIRIAMMIQASMIX
MIGEN
ARRIVEMIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
MAGE-TabGCDML
SRAxmlSOFT FASTA
DICOM
MzMLSBRML
SEDML…
GELML
ISA-Tab
CML
MITAB
AAOCHEBI
OBIPATO ENVO
MOD
BTOIDO…
TEDDY
PROXAO
DO
VO
There are over 650 standards in the life sciences
Formats Terminologies Guidelines
Guidelines = Minimum information
reporting requirements, checklists o Report the same core, essential
information o e.g. ARRIVE guidelines
Terminologies = Controlled
vocabularies, taxonomies,
thesauri, ontologies etc.o Use the same word and
refer to the same ‘thing’o e.g. Gene Ontology
Models/Formats = Conceptual
model, conceptual schema,
exchange formatso Allow data to flow from one
system to anothero e.g. FASTA
Enablers: to better describe, share and query data
Formats Terminologies Guidelines
Data policies by funders, journals and other organizations
(>100)
Database, tools and services
(>1000)
Content standards(>700)
Complex and evolving landscape
Formats Terminologies Guidelines
Helping stakeholders to find answers
What is BioSharing?
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 the user community.
What is BioSharing?
Standards are digital objects too and we make them FAIR
What data do we capture for standards
10
Criteria for evaluating standards
Ready for use, implementation, or recommendation
In development
Status uncertain
Deprecated as subsumed or superseded
Manually curated, approved by the community
Recording the life cycle of a resource
Discover standards, databases, policies, and their relationships
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.
Different cuts of the data
“BioSharing and its interactive browser will allow us to discover which databases and 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 Murray, F1000Research
Advisory Board Operational Team
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