A Linked Open Data Approach to Interoperability between
Biomedical Resource Inventories
Trish Whetzel, Ph.D.
Presenting on behalf of the Resource Coordination Group (Anita Bandrowski, Carlo Torniai, Charles Borromeo, Melissa
Haendel, Jessica Tenenbaum)
Outline
• Resourceome • Resource Inventory Projects• Interoperability • Future Plans
Accessing the “Resourceome”
• Machine-readable resource associated with a website
• Resources are described in terms of an information model
• Supported by the Biomedical Resource Ontology
• Can be discovered by search engines such as Google
Biositemaps
www.biositemaps.org
Biositemaps
National Centers forBiomedical Computing
Clinical and TranslationalScience Awards
www.ncbcs.org www.ctsaweb.org
Resource Discovery System:A catalog of > 1,400 biomedical resourcesA set of tools and services for easy sharing of and linking of resources to articles, websites etc.The tools ingest NIF resources.
Neuroscience Information Framework
• A portal for finding and using resources
• Resources are described in terms of an information model
• Supported by the NIFSTD ontology
• Provides simultaneous search of >30M database records, organized by category www.neuinfo.org
Neuroscience Information Framework
MT
WYID
WA
OR
NV
UT
CA
AZ
ND
SD
NE
CO
NM
TX
OK
KS
AR
LA
MO
IA
MN
WI
ILIN
KY
TN
MS AL GA
FL
SC
VAWV
MI NY
PA
MDDENJ
CTRI
MA
MEVT
NH
AK
HI
NC
PR
Supported by the NIH Blueprint for Neuroscience
NIF Registry:A catalog of > 3,500 human curated databases, tools and materialsA set of tools and services for easy sharing of and linking of data to articles, websites etc.The tools ingest Biositemaps and two other common resource description formats
eagle-i
• Make scientific research resources more visible via a federated network
• Resources are described in terms of an information model
• Supported by the eagle-i ontology
• Reducing time-consuming and expensive duplication of resources
www.eagle-i.org
eagle-i
Supported by National Center for Research Resources
Google meets Ontology-guided
search
eagle-i’s current holdings
eagle-i Repositories:A catalog of > 70,000 human curated invisible research resourcesA set of tools and services for easy sharing of and linking of resources to articles, websites etc.The tools ingest Biositemaps and NIF resources.
The same search on a NIF tab
Outline
• Resourceome • Resource Inventory Projects• Interoperability • Future Plans
Resource Ontologyeagle-i
NIF
BRO
Resource Information Model
• Resource name• Resource description• URL• Resource type • Availability of documentation• Contact person• Contact person email • Organization
Diverse use cases requirediverse ontologies and data sources
Community ontologiesand taxonomies
Public repositories and
resources
Lab resources inventoried by
eagle-i
eagle-i ontologies
repositoryrepository repository
NIFStd ontologiesBRO ontology
Institutional core facility
Biositemaps
Future Plans
Community ontologiesand taxonomies
Public repositories and
resources
repository
Lab resources inventoried by
eagle-i
Institutional core facility
Biositemaps
Acknowledgements
• Mark Musen• Mike Becich• Jessica Tenenbaum • Fahim Imam • Maryann Martone• Chris Shaffer• Daniela Bourges
• Biositemaps Consortium• eagle-i Consortium• NIF Consortium
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