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Markdowns/12_Gene_set_testing_introduction.Rmd

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title: "Introduction to Gene Set Testing in R"
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date: "July 2021"
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date: "November 2021"
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output:
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ioslides_presentation:
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css: css/stylesheet.css
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## Over Representation Analysis - Method
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* This method tests whether genes in specific pathway are present in a subset of
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* This method tests whether genes in a specific pathway are present in a subset of
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genes of interest in our data more than expected.
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* The genes of interest could be e.g. statistically significant

Markdowns/12_Gene_set_testing_introduction.html

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<h1 data-config-title><!-- populated from slide_config.json --></h1>
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<p data-config-presenter><!-- populated from slide_config.json --></p>
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<p style="margin-top: 6px; margin-left: -2px;">July 2021</p>
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<p style="margin-top: 6px; margin-left: -2px;">November 2021</p>
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</hgroup>
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</slide>
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</article></slide><slide class=""><hgroup><h2>Over Representation Analysis - Method</h2></hgroup><article id="over-representation-analysis---method" class="smaller ">
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<ul>
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<li><p>This method tests whether genes in specific pathway are present in a subset of genes of interest in our data more than expected.</p></li>
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<li><p>This method tests whether genes in a specific pathway are present in a subset of genes of interest in our data more than expected.</p></li>
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<li><p>The genes of interest could be e.g. statistically significant genes or a cluster of genes from hierachical or k-means clustering.</p></li>
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<li><p>Given the ratio of genes in the pathway to genes not in the pathway, is the number of genes in the pathway and in our subset statistically unlikely by chance.</p></li>
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</ul>

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