a lined data approach to interoperability between biomedical resource inventories

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