View source for Gene set enrichment analysis (Gene table) (workflow)

;Workflow title
:Gene set enrichment analysis (Gene table)
;Provider
:[[geneXplain GmbH]]
== Workflow overview ==
[[File:Gene-set-enrichment-analysis-Gene-table-workflow-overview.png|400px]]
== Description ==
This workflow is designed to perform Gene Set Enrichment Analysis, GSEA, as it is described at [http://www.broadinstitute.org/gsea/index.jsp http://www.broadinstitute.org/gsea/index.jsp].

As input, any gene or protein table that includes fold change (or any other numerical value that can be used as a weighted column) can be taken.

At the first step, the input table is converted into a table with Ensembl Gene IDs.

This table with Ensembl Gene IDs is subjected to GSEA. Enrichment analysis is done in parallel by the following ontologies: GO biological processes, GO cellular components, GO molecular functions and by the Reactome pathways.

For each ontological term several parameters are calculated, including nominal p-value, ES, NES, as well as hit names, the link to the corresponding ontological term, and the link to open a visualization plot.

== Parameters ==
;Input table
;Enrichment Weight Column
:Enter the name of the column from the Input table with numerical values
;Species
;Results folder

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[[Category:GeneXplain workflows]]
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