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Cantemist guidelines: neoplasms morphology annotation and mapping to CIEO-3

Farré, Eulàlia; González, Gloria; Krallinger, Martin; Mas, Toni; Miranda-Escalada, Antonio


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    <dct:title>Cantemist guidelines: neoplasms morphology annotation and mapping to CIEO-3</dct:title>
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    <dcat:keyword>NLP</dcat:keyword>
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    <dcat:keyword>neoplasm morphology</dcat:keyword>
    <dcat:keyword>cieo</dcat:keyword>
    <dcat:keyword>oncology</dcat:keyword>
    <dcat:keyword>NER</dcat:keyword>
    <dcat:keyword>normalization</dcat:keyword>
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    <dct:description>&lt;p&gt;Important: &lt;strong&gt;CANTEMIST corpus&lt;/strong&gt; is available at: h&lt;a href="http://zenodo.org/record/3878488"&gt;ttps://zenodo.org/record/3878488&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;For more information, visit &lt;a href="https://temu.bsc.es/cantemist/?p=4362"&gt;https://temu.bsc.es/cantemist/?p=4362&lt;/a&gt;&lt;/p&gt; &lt;p&gt;The Cantemist corpus was manually annotated by clinical experts following the Cantemist guidelines. &amp;nbsp;These guidelines contain rules for annotating morphology neoplasms in Spanish oncology clinical cases; as well as for mapping these annotations to&lt;a href="https://eciemaps.mscbs.gob.es/ecieMaps/browser/index_o_3.html"&gt; CIEO-3&lt;/a&gt; (Spanish version of &lt;a href="https://www.who.int/classifications/icd/adaptations/oncology/en/"&gt;ICD-O-3&lt;/a&gt;).&lt;/p&gt; &lt;p&gt;Guidelines were created de novo by clinical experts in three phases:&lt;/p&gt; &lt;ul&gt; &lt;li&gt;&amp;nbsp;First, a zero version of guidelines after the clinical experts reviewed neoplasm morphology annotations in SPACCC corpus see Codiesp guidelines(https://zenodo.org/record/3730567).&lt;/li&gt; &lt;li&gt;&amp;nbsp;Second, a stable version of guidelines was reached while annotating sample sets of Cantemist corpus iteratively until quality control was satisfactory.&lt;/li&gt; &lt;li&gt;&amp;nbsp;Third, guidelines are iteratively refined as manual annotation continues.&lt;/li&gt; &lt;/ul&gt;</dct:description>
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