A UIMA wrapper for the NCBO annotator

Bioinformatics. 2010 Jul 15;26(14):1800-1. doi: 10.1093/bioinformatics/btq250. Epub 2010 May 26.


Summary: The Unstructured Information Management Architecture (UIMA) framework and web services are emerging as useful tools for integrating biomedical text mining tools. This note describes our work, which wraps the National Center for Biomedical Ontology (NCBO) Annotator-an ontology-based annotation service-to make it available as a component in UIMA workflows.

Availability: This wrapper is freely available on the web at http://bionlp-uima.sourceforge.net/ as part of the UIMA tools distribution from the Center for Computational Pharmacology (CCP) at the University of Colorado School of Medicine. It has been implemented in Java for support on Mac OS X, Linux and MS Windows.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Data Mining / methods*
  • Databases, Factual
  • Software*
  • User-Computer Interface