NCBO Developer Documentation

With the explosion of information in the biomedical domain, it has become much harder for scientists to access knowledge and experimental data with rapidity and accuracy. The NCBO is currently developing products and solutions that will advance biology and medicine by enhancing the structured organization of knowledge and improving access to large repositories of biomedical knowledge and data.

NCBO Source Code Repository

NCBO source code for all products and solutions can be found on our [NCBO GForge site|https://bmir-gforge.stanford.edu/gf/project/ncbo/].

NCBO Products

Below are developer links associated with the various NCBO products and solutions.

BioPortal 2.0

Focus: Browsing Biomedical Ontologies

The following two document describe the BioPortal 2.0 REST web service APIs.

BioPortal 2.0 REST Web Service URL Documentation

BioPortal 2.0 REST Web Service URL Documentation (with Admin role)

Local Installation

Please contact BioPortal Support for information on how to contribute features.

Release Notes

BioPortal 2.0.1 (Label 1005) Release Notes - 9/19/2008

BioPortal 2.0.2 (Label 1006) Release Notes - Under Construction

Open Biomedical Resources

Focus: Using Ontologies to Access Public Data

Technical documentation, prototypes and products will be available here: http://obs.bioontology.org/

Open Biomedical Annotator

Focus: Using Ontologies to Annotate Your Data

Technical documentation, prototypes and products will be available here: http://obs.bioontology.org/

UMLS Services

The UMLS Services pertain to a number of internally reusable services and APIs. Our UMLS REST Services are currently deployed on our local Staging services. We will continue to solidify and merge our recent research advancements. Once the merge has been completed, we will transition the services to Production.

Developer Documentation Under Development

NCBO PURL Server

Focus: Providing URIs for Biomedical Concepts

NCBO Partner Development

This section presents links to NCBO partners who are deploying and/or contributing to the NCBO software code-base.

Monterey Bay Aquarium

A subsidiary of Monterey Bay Aquarium, MMI, is deploying the BioPortal 2.0 software as a basis for their "MMI Ontology Registry and Repository" for their marine science community.

• For more information about MMI, please peruse their web site: http://marinemetadata.org/
• Information about ongoing Ontology Repository architecture, design, and development is accessible from the following page: MMI Development
• The MMI Ontology Repository is currently under construction (development server: http://mmisw.org/or).

National Cancer Institute

The NCI has leveraged BioPortal 1.0 software as a basis for their Terminology Browser which is accessible from the following URL: http://bioportal.nci.nih.gov/