THE NATIONAL CENTER FORBIOMEDICAL ONTOLOGY

NCBO Technology

Trish WhetzelOutreach Coordinator

Outline

• NCBO Overview• BioPortal• NCBO Web Services• Applications using NCBO Technology

National Centers for Biomedical Computing(http://www.ncbcs.org)

NCBO Key Activities

• We create and maintain a library of biomedical ontologies

• We build tools and Web services to enable the use of ontologies

• We collaborate with scientific communities that develop and use ontologies

www.bioontology.org

Outline

• NCBO Overview• BioPortal• NCBO Web Services• Applications using NCBO Technology

bioportal.bioontology.orgbioportal.bioontology.org

BioPortal

• Repository of biomedical ontologies• Stores ontologies developed in OWL or OBO

format• View, browse, and search across ontologies

through the Web interface• Programmatic access to ontologies via Web

services and SPARQL endpoint • Access control for private ontologies

Outline

• NCBO Overview• BioPortal• NCBO Web Services• Applications using NCBO Technology

http:

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Ontology ServicesOntology Services

• Search• Traverse• Comment• Download

• Search• Traverse• Comment• Download

WidgetsWidgets• Tree-view• Auto-complete• Graph-view

• Tree-view• Auto-complete• Graph-view

AnnotationAnnotation

Data AccessData Access

Mapping ServicesMapping Services

• Create• Upload• Download

• Create• Upload• Download

Term recognitionTerm recognition

Search “data” annotated with a given term

Search “data” annotated with a given term

http://bioportal.bioontology.orghttp://bioportal.bioontology.org

Outline

• NCBO Overview• BioPortal• NCBO Web Services• Applications using NCBO Technology

Applications using NCBO Technology

These 3 software

components of

use BioPortal Web services

to access, browse ontology

and provide term-tagging

features

http://isatab.sourceforge.net/isacreator.htmlhttp://isatab.sourceforge.net/isacreator.html

http://metagenomics.anl.gov/http://metagenomics.anl.gov/

http://ontogrator.org/clinicaltrialshttp://ontogrator.org/clinicaltrials

https://submit.ncbi.nlm.nih.gov/biosample/templates/all_attributes/https://submit.ncbi.nlm.nih.gov/biosample/templates/all_attributes/

http://biosharing.org/standards/terminology_artifacthttp://biosharing.org/standards/terminology_artifact

Summary

• NCBO provides access to ontologies via Web services

• Web services are easy to integrate into software applications

• Use of common ontologies across projects better facilitates data integration and analysis

Thank you!

• Web service documentation: http://www.bioontology.org/wiki/

index.php/NCBO_REST_services• Keep in touch

– Software support: support@bioontology.org

– Twitter: @bioontology– Facebook: http://on.fb.me/bioontology – LinkedIn: http://linkd.in/ncbo-group