<?xml version="1.0" standalone="yes"?>
<Paper uid="W04-0711">
  <Title>BioAR: Anaphora Resolution for Relating Protein Names to Proteome Database Entries</Title>
  <Section position="1" start_page="0" end_page="0" type="abstr">
    <SectionTitle>
Abstract
</SectionTitle>
    <Paragraph position="0"> The need for associating, or grounding, protein names in the literature with the entries of proteome databases such as Swiss-Prot is well-recognized. The protein names in the biomedical literature show a high degree of morphological and syntactic variations, and various anaphoric expressions including null anaphors. We present a biomedical anaphora resolution system, BioAR, in order to address the variations of protein names and to further associate them with Swiss-Prot entries as the actual entities in the world. The system shows the performance of 59.5%a2 75.0% precision and 40.7%a2 56.3% recall, depending on the speci c types of anaphoric expressions.</Paragraph>
    <Paragraph position="1"> We apply BioAR to the protein names in the biological interactions as extracted by our biomedical information extraction system, or BioIE, in order to construct protein pathways automatically.</Paragraph>
  </Section>
class="xml-element"></Paper>