n connecting standards, databases and data policies Susanna-Assunta Sansone Associate Director Oxford e-Research Centre, University of Oxford
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n
connecting standards, databases and data policies
Susanna-Assunta Sansone
Associate Director
Oxford e-Research Centre, University of Oxford
• Domain-level descriptors that are essential for interpretation, verification, reproducibility and reusability of datasets
• The depth and breadth of descriptors vary according to the domain broadly covering the what, who, when, how and why
Content standards
Formats Terminologies Guidelines
Content standards: three categories
Minimum information reporting requirements, checklists
o Report the same core, essential information
o e.g. MIAME guidelines
Controlled vocabularies, taxonomies, thesauri, ontologies etc.
o Unambiguous identification and definition of concepts o e.g. Gene Ontology
Conceptual model, schema, exchange formats etc
o Define the structure and interrelation of information, and the transmission format
o e.g. FASTA Formats Terminologies Guidelines
Content standards: three categories
Formats Terminologies Guidelines
Community-driven initiatives
de jure de factograss-roots
groupsstandard
organizations
Nanotechnology Working Group
883 -> ~1000
220+
115+
548
source sourcesource
Content standards in numbers
Formats Terminologies Guidelines
MIAMEMIRIAM
MIQASMIXMIGEN
ARRIVEMIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
SRAxml
SOFT FASTADICOM
MzMLSBRML
SEDML…
GELML
ISA
CML
MITAB
AAOCHEBIOBI
PATO ENVOMOD
BTOIDO…
TEDDY
PRO
XAO
DO
VO
MIAPPESample-Tab
Content standards
Data policies by funders, journals and other organizations
Databases, tools and services
Formats Terminologies Guidelines
Mapping this evolving landscape
Content standards
Data policies by funders, journals and other organizations
Databases, tools and services
Formats Terminologies Guidelines
a resource of the ELIXIR Interoperability Platform
• Aweb-based,curatedandsearchableportalthat monitorstheir
development andevolution toinform andeducate
Not just quantity but quality: rich, curated and community
vetted descriptions
Indicators to describe the status of standards and databases
Readyforuse,implementation,orrecommendation
Indevelopment
Statusuncertain
Deprecatedassubsumedorsuperseded
Manuallycuratedandverifiedbythecommunitybehindeachresource
Tracking evolution, e.g.:
Visualizing relations, e.g.:
DataPolicyListoftheir
recommendeddatabasesandstandards
…to inform and educate on existing and new resources
DataPolicy
Working with/for the community and our ‘adopters’, e.g.:
Standard developing groups:Journal, publishers:
Cross-links, data exchange:
Societies and organisations: Institutional RDM services:
Projects, programmes: 533
responders
Progressively cross-linking with other ELIXIR resources
Cross-links, data exchange:
Societies and organisations:
Standard developing groups:Journal, publishers:
Institutional RDM services:
Projects, programmes:
• Increase discoverability (e.g. by search engines), aggregation (e.g. by indices)
and analysis of content in different websites and services• use of schema.org structured semantic markup (for web pages’ content) by Google, Bing,
Yahoo, Yandex• coordinate its extension, where needed, in the life science area
Gaining traction and support by:
Acknowledgements
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