<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/1999/REC-html401-19991224/loose.dtd"> <html><head><title>Index for xtools.gsea.Gsea Freiburg_BTSC233_NF1_GRD.Gsea.1557494919416</title><link href='xtools.css' rel='stylesheet'><link href='http://www.gsea-msigdb.org/gsea/images/XBench.gif' rel='shortcut icon'></head><body><div id="footer" style="width: 905; height: 35"> <h3 style="text-align: left"><font color="#808080">GSEA Report for Dataset NF1_GRD_exprs</font></h3> </div><div><h4>Enrichment in phenotype: <b>GRD (3 samples)</b></h4><ul><li>6 / 12 gene sets are upregulated in phenotype <b>GRD</b><li>6 gene sets are significant at FDR < 25%<li>2 gene sets are significantly enriched at nominal pvalue < 1%<li>4 gene sets are significantly enriched at nominal pvalue < 5%<li><a href='pos_snapshot.html'>Snapshot</a> of enrichment results<li>Detailed <a href='gsea_report_for_GRD_1557494919416.html'>enrichment results in html</a> format<li>Detailed <a href='gsea_report_for_GRD_1557494919416.xls'>enrichment results in excel</a> format (tab delimited text)<li><a href='http://www.gsea-msigdb.org/gsea/doc/GSEAUserGuideFrame.html?_Interpreting_GSEA_Results'>Guide to</a> interpret results</ul></div><div><h4>Enrichment in phenotype: <b>Ctrl (3 samples)</b></h4><ul><li>6 / 12 gene sets are upregulated in phenotype <b>Ctrl</b><li>5 gene sets are significantly enriched at FDR < 25%<li>3 gene sets are significantly enriched at nominal pvalue < 1%<li>3 gene sets are significantly enriched at nominal pvalue < 5%<li><a href='neg_snapshot.html'>Snapshot</a> of enrichment results<li>Detailed <a href='gsea_report_for_Ctrl_1557494919416.html'>enrichment results in html</a> format<li>Detailed <a href='gsea_report_for_Ctrl_1557494919416.xls'>enrichment results in excel</a> format (tab delimited text)<li><a href='http://www.gsea-msigdb.org/gsea/doc/GSEAUserGuideFrame.html?_Interpreting_GSEA_Results'>Guide to</a> interpret results</ul></div><div><h4>Dataset details</h4><ul><li>The dataset has 21596 features (genes)<li>No probe set => gene symbol collapsing was requested, so all 21596 features were used</ul></div><div><h4>Gene set details</h4><ul><li>Gene set size filters (min=15, max=500) resulted in filtering out 0 / 12 gene sets<li>The remaining 12 gene sets were used in the analysis<li>List of <a href='gene_set_sizes.xls'>gene sets used and their sizes</a> (restricted to features in the specified dataset)</ul></div><div><h4>Gene markers for the <b>GRD</b><i> versus </i><b>Ctrl</b> comparison</h4><ul><li>The dataset has 21596 features (genes)<li># of markers for phenotype <b>GRD</b>: 10663 (49.4% ) with correlation area 49.4%<li># of markers for phenotype <b>Ctrl</b>: 10933 (50.6% ) with correlation area 50.6%<li>Detailed <a href='ranked_gene_list_GRD_versus_Ctrl_1557494919416.xls'>rank ordered gene list</a> for all features in the dataset<li><a href='heat_map_corr_plot.html'>Heat map and gene list correlation </a> profile for all features in the dataset</ul></div><div><h4>Global statistics and plots</h4><ul><li>Plot of <a href='pvalues_vs_nes_plot.png'>p-values <i>vs.</i> NES</a> <li><a href='global_es_histogram.png'>Global ES</a> histogram</ul></div><div><h4>Other</h4><ul><li><a href='Freiburg_BTSC233_NF1_GRD.Gsea.1557494919416.rpt'>Parameters</a> used for this analysis</ul></div><div><br></div><hr class="solid_line"/> <div id="footer"> Report: Freiburg_BTSC233_NF1_GRD.Gsea.1557494919416.rpt   by user: msquatrito  <div class="date">xtools.gsea.Gsea [Fri, May 10, '19 3 PM 28]</div> <div class="contact">Website: <a href="http://www.gsea-msigdb.org/gsea">www.gsea-msigdb.org/gsea</a> Questions & Suggestions: <a href="http://www.gsea-msigdb.org/gsea/contact.jsp">Contact page</a></div> <div class="spacer"> </div> </div> </body></html>