The NIH BD2K bioCADDIE DataMed: Data Discovery Index. Focus on metadata standards

1. Consultant,
Honorary Academic Editor
Associate Director,
Principal Investigator
!
Susanna-Assunta Sansone, PhD!
!
!
Alan Turing Institute Symposium
Oxford, 6-7 April, 2016

2. A Data Discovery Index prototype that:!
• Helps users find and access shared data !
• Interoperates in the NIH Commons (biomedical
digital assets) !

4. Repositories
Metadata Ingestion
ElasticSearch
Terminology server
User Interface
Online datasets
PublishersFunding
Agencies
Data producers
DataSources
Ingestion Indexing
Searching
prototype!

5. aggregator'
A'
B C
A
aggregator'
Data'Discovery'Index'
data'
Organizing framework and
portal for data
Dashed lines:
mapping of metadata standards,
links to aggregators, data
Aggregators:
repositories or various indices
Data:
digital research objects
Pilot projects*Core
development team
* There is work for everyone (and more)
Designed as an element of
the ecosystem!

6. Use cases- community-driven effort!

7. The ‘right’ level of metadata elements!!
Examples of competency questions, derived from the use cases

8. The ‘appropriate’ metadata standards!!
Mapping the landscape of standards and databases in the life sciences

9. mapped a variety of metadata standards and database schemas
Generic schemas:!
• schema.org!
• DataCite!
• RIF-CS!
• DCAT!
• PROV!
• VOID!
• Dublin Core !
• etc…!
Life/biomedical schemas:!
• BioProject!
• BioSample!
• MiNIML!
• PRIDE-ml!
• GA4GH metadata schema!
• SRA xml!
• CDISC SDM / BRIDGE model !
• etc…!
We have aimed to have maximum
coverage of use cases with
minimal number of data elements
We do foresee that not all
questions can be answered in full
From to!

10. Prototype, model, mappings, documentation and more at!
https://biocaddie.org and https://github.com/biocaddie !
Supported by the NIH grant 1U24 AI117966-01 to the University of California, San Diego