Benchmark of Ontology Mapping Tools

Project Status

Ongoing

Project Deliverable

Survey and benchmark test of ontology mapping tools

Collaborator Name

Kohane Lab, Department of Biomedical Informatics, Harvard Medical School

HMS Department

Department of Bioinformatics (DBMI)

Project Description

There is often a need to standardize the metadata that describe biomedical data, in order to facilitate integration and meta-analysis of that data. This process involves manually mapping the original (unstructured or locally coded) metadata to widely used ontologies. There are tools—often called term or concept annotators, recognizers, or mappers—that are designed to mechanize the time-consuming mapping process. In this project, we carry out a survey of existing ontology mapping tools, and a benchmark test to determine how accurately the mapping tools can find mappings from gold standard, expert-verified mapping sets.

Questions?

Contact Genoa Polumbo with questions about this project.