{% extends "base.html" %} {% import "bootstrap/wtf.html" as wtf %} {% import "bootstrap/fixes.html" as fixes %} {% import "bootstrap/utils.html" as util %} {% block title %}Enriched Pathways{% endblock %}xz {% block styles %} {{ super() }} {% endblock %} {% block scripts %} {{ super() }} {% include "dependencies/datatables.html" %} {% endblock %} {% block content %}
The enriched pathways are presented in different tables for each resource loaded into ComPath. The pathway enrichment is presented in the third column (adjusted p-values) by performing a Fisher's Exact Test for each mapped pathway in all resources and adjusting the values using Benjamini & Hochberg correction. The purpose of the adjusted p-values (rounded to 4 decimal places) is to guide the user on what pathway selection should use for further analysis.
Gene Symbols Submitted | {% for hgnc_symbol in submitted_gene_set %} {{ hgnc_symbol }} {{ "," if not loop.last }} {% endfor %} |
Number of Pathways Mapped | {{ number_of_pathways }} |
Select All Pathways |
First, select your pathways of interest and click in the type of analysis to perform. The "Venn Diagram" button displays the overlap between the selected pathways represented as Venn Diagrams, "Dendrogram" clusters the pathways and present a dendrogram where users can further investigate the pathway groups, and finally, the "Network View" button represents the neighborhood of most similar pathways to the selection.
Pathway Name | Resource Identifier | Adjusted p-value | Genes Mapped | Pathway Size | |
---|---|---|---|---|---|
{{ enriched_pathway["pathway_name"] }} | {% if resource_name == "reactome" %} {{ enriched_pathway["pathway_id"] }} {% elif resource_name == "kegg" %} {{ enriched_pathway["pathway_id"] }} {% elif resource_name == "wikipathways" %} {{ enriched_pathway["pathway_id"] }} {% elif resource_name == "msig" %} {{ enriched_pathway["pathway_id"] }} {% else %} {{ enriched_pathway["pathway_id"] }} {% endif %} | {{ enriched_pathway["q_value"] }} | {{ enriched_pathway["mapped_proteins"] }} | {{ enriched_pathway["pathway_size"] }} |