ONBRIRES: Ontology-Based Biological Relation Extraction System

Automated discovery and extraction of biological relations from online documents, particularly MEDLINE texts, has become essential and urgent because such literature data are accumulated in a tremendous growth. In this paper, we present an ontology-based framework of biological relation extraction system. This framework is unified and able to extract several kinds of relations such as gene-disease, gene-gene, and protein-protein interactions etc. The main contributions of this paper are that we propose a two-level pattern learning algorithm, and organize patterns hierarchically.