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<!doctype html>
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    <title>About PubMed Search Tester</title>
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<main role="main">
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    <div class="container">
      <a id="about" class="btn btn-outline-secondary" href="index.html">Home</a>
      <h1 class="display-3">PubMed Mapping Tester</h1>
    </div>
  </div>

  <div class="container">
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      <div class="col-md-7 mr-5 ">
        <h2>Why PubMed Mapping Tester?</h2>
        <p>With <a href="https://www.youtube.com/watch?v=MQ-ttxlkN2U">Automatic Term Mapping</a>, a simple text
          query is translated to a more complex one, often composed of <a href="https://www.nlm.nih.gov/mesh/meshhome.html">MeSH headings</a> as well as
          different text fields. The algorithm for doing so is maintained by the National Library of Medicine, and the final translation for a given
          search is viewable by selecting the "Advanced" tab in PubMed. To take one completely random example, the
          mapping for the term "covid-19" becomes this:</p>
          <div class="card mb-3">
            <div class="card-body">
              <p class="card-text">
"covid 19"[All Fields] OR "covid 19"[MeSH Terms] OR "covid 19 vaccines"[All Fields] OR "covid 19 vaccines"[MeSH Terms] OR "covid 19 serotherapy"[All Fields] OR "covid 19 serotherapy"[Supplementary Concept] OR "covid 19 nucleic acid testing"[All Fields] OR "covid 19 nucleic acid testing"[MeSH Terms] OR "covid 19 serological testing"[All Fields] OR "covid 19 serological testing"[MeSH Terms] OR "covid 19 testing"[All Fields] OR "covid 19 testing"[MeSH Terms] OR "sars cov 2"[All Fields] OR "sars cov 2"[MeSH Terms] OR "severe acute respiratory syndrome coronavirus 2"[All Fields] OR "ncov"[All Fields] OR "2019 ncov"[All Fields] OR (("coronavirus"[MeSH Terms] OR "coronavirus"[All Fields] OR "cov"[All Fields]) AND 2019/11/01:3000/12/31[Date - Publication])</p>
</div>
</div>

        <p>The other way to see the results of a search (and the mapping from which it is derived)
          is by using the API maintained by the NCBI. While the new version of PubMed has been in
          production for some months, the public API still points to the old search interface (and thus, the
          older iteration of ATM).</p>

        <h2>How does it work?</h2>
        <p>Happily, there is now a test instance of the API that points to the new search interface, allowing
          us to directly compare one version to the other (for at least the next several weeks before the old
          API is retired). It is these two different APIs that PubMed Mapping Tester uses to retrieve the two sets
          of results for comparison.</p>

        <p>Once you enter your search, you'll see the number of results returned by both 'old' PubMed and the
          current version. You'll also see the ATM translation used by each. Any terms that are newly included in
          the new mapping will be highlighted in yellow. For example, here is the mapping for 'influenza' compared
          in each system:
        </p>
        <div class="card mb-3">
          <div class="card-body">
            <div class="card-title">'Old' PubMed Results</div>
            <p class="card-text"><span class="counts">Count: </span><span id="oldcount"><span class="totals">121778<span></span></span></span></p>
            <p class="card-text"><span class="mapping">Mapping:</span></p>
            <p><span id="oldmapping">"influenza, human"[MeSH Terms] OR ("influenza"[All Fields] AND "human"[All Fields]) OR "human influenza"[All Fields] OR "influenza"[All Fields]</span></p>
          </div>
        </div>

        <div class="card mb-3">
          <div class="card-body">
            <div class="card-title">'New' PubMed Results</div>
            <p class="card-text"><span class="counts">Count: </span><span id="newcount"><span class="totals">148033</span>  <span class="percentdiff">(21.56% more)</span></span></p>
            <p class="card-text"><span class="mapping">Mapping:</span></p>
            <p><span id="newmapping"><span class="hilite">"influenza</span> <span class="hilite">s"[All&nbsp;Fields]</span> OR "influenza, human"[MeSH&nbsp;Terms] OR ("influenza"[All&nbsp;Fields] AND "human"[All&nbsp;Fields]) OR "human influenza"[All&nbsp;Fields] OR "influenza"[All&nbsp;Fields] OR <span class="hilite">"influenzas"[All&nbsp;Fields]</span> OR <span class="hilite">"influenzae"[All&nbsp;Fields]</span></span></p>
          </div>
        </div>

      </div>
      <div class="col-md-3">
        <h3>Technology and Credits</h3>
        <p>This application is made with <a href="https://developer.mozilla.org/en-US/docs/Web/JavaScript">JavaScript</a> and runs in your browser.</p>

        <p>PubMed is queried (and results are retrieved) using the <a href="https://www.ncbi.nlm.nih.gov/">National Center for Biotechnology Information's</a> publicly accessible
         <a href="https://dataguide.nlm.nih.gov/eutilities/utilities.html">E-utilities API</a>.</p>

        <p>Responsive design made less painful with <a href="https://getbootstrap.com/">Bootstrap</a>.</p>

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  <span class="text-muted">Design and contruction by <a href="https://esperr.github.io/about/">Ed Sperr, M.L.I.S.</a>  |
    Data from <a href="http://www.ncbi.nlm.nih.gov/">NCBI</a>
   | See the code at <a href="https://github.com/esperr/mapping-tester">GitHub</a></span>
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