Difference between revisions of "Gene set enrichment analysis (Gene table) (workflow)"

Revision as of 15:10, 18 April 2013

Workflow title

Gene set enrichment analysis (Gene table)

Provider

GeneXplain GmbH

Workflow overview

Description

This workflow is designed to perform Gene Set Enrichment Analysis, GSEA, as it is described at 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