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Semantics of assoc-with links in EKBs ignored #276

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bgyori opened this issue Aug 29, 2017 · 0 comments
Open

Semantics of assoc-with links in EKBs ignored #276

bgyori opened this issue Aug 29, 2017 · 0 comments

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@bgyori
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bgyori commented Aug 29, 2017

In this example, "TGF receptor" is extracted as

  <TERM id=\"V34953\" dbid=\"GO:0004872|NCIT:C18106\">
    <type>ONT::PROTEIN</type>
    <name>RECEPTOR</name>
    <assoc-with id=\"V34945\"/>
    <drum-terms>
      <drum-term dbid=\"GO:0004872\" match-score=\"1.0\" name=\"receptor activity\" matched-name=\"receptor\">
        <types>
          <type>ONT::PROTEIN</type>
        </types>
      </drum-term>
      <drum-term dbid=\"NCIT:C18106\" matched-name=\"receptor\" name=\"receptor\" match-score=\"1.0\">
        <types>
          <type>ONT::PROTEIN</type>
        </types>
      </drum-term>
    </drum-terms>
  </TERM>
  <TERM id=\"V34945\" dbid=\"NCIT:C20453\">
    <type>ONT::PROTEIN-FAMILY</type>
    <name>TGF</name>
    <drum-terms>
      <drum-term dbid=\"NCIT:C20453\" match-score=\"0.82857\" matched-name=\"TGF\" name=\"transforming growth factor\">
        <types>
          <type>ONT::PROTEIN-FAMILY</type>
        </types>
      </drum-term>
    </drum-terms>
  </TERM>

basically representing "the receptor associated with TGF". Currently we just follow the assoc-with link and extract TGF as the main entity. But given the right semantic annotations, we could, in principle recognize that this refers to the receptor of TGF, and create an INDRA Agent accordingly.

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