This document provides an overview of BioSharing.org, a portal that monitors and curates standards, databases, and data policies to help inform and educate users. It summarizes key features including tracking over 225 content standards, 115 databases, and 554 data policies. The portal aims to help users understand how standards are used and make informed decisions on standards selection. It also links standards to training materials and allows custom collections and recommendations to be created.

1. www.elixir-europe.org
ELIXIR Webinar
BioSharing.org
Peter McQuilton, PhD
@drosophilic/@biosharing

2. Acknowledgements

3. 3
(2008)
(2009)
(2011)
(2017)
• registry development,
• content collection & expansion,
• fund raising
• community engagement,
• creation of an RDA/Force11 WG
and anAdvisory Board
• links with ELIXIR and NIH BD2K
https://www.biosharing.org/timeline

4. • 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

5. Data policies by
funders, journals
and other
organizations
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

6. Content standards
Data policies by
funders, journals
and other
organizations
Databases
Formats Terminologies Guidelines
By grass-roots
groups, e.g.:
By standard
organizations, e.g.:
Mapping a complex and evolving
landscape

7. Formats Terminologies Guidelines
225
115
554
source source
source
MIAME
MIRIAM
MIQAS
MIX
MIGEN
ARRIVE
MIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
SRAxml
SOFT FASTA
DICOM
MzML
SBRML
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

8. Understanding how standards are used

9. Guideline
Understanding how standards are used

10. Formats
Guideline
Understanding how standards are used

11. Formats
Guideline
Formats
Understanding how standards are used

12. Formats
Guideline
Formats
Terminology
Understanding how standards are used

13. bsg-000174
biosharing:
ReportingGuideline
bsg-000161
MINSEQE
MIMARKS
sample
information
sample
identifier
taxonomy
identifier
sequence
read
geo location
High-level information about
the metadata standards
Representations
of the standards elements
Template elements
for
el-000001
el-000002
el-000003
provenance:
MINSEQE
provenance:
MINSEQE
and
MIMARKS
provenance:
MIMARKS
• Serve machine-readable content metadata standards, providing provenance for their elements
• Inform the creation of metadata templates, rendering standards invisible to researchers
Modularise and combine

14. 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

15. 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 standards
and standards-compliant
databases that we should
recommend to our authors?
Helping users make the right decision

18. Training

19. Linking standards and databases to
training material

21. 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

23. Data Policy
Visualizing relationships

25. “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

26. Standard developing groups:Journal, publishers:
Cross-links, data exchange:
Societies and organisations: Institutional RDM services:
Projects, programmes:
Working with the community/adopters

28. Thank-you!
Any questions?
Biosharing-contact-
us@lists.sf.net
Acknowledgements