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

Latest revision as of 16:34, 12 March 2019

Workflow title

Gene set enrichment analysis HumanPSD (Gene table)

Provider

geneXplain GmbH

[edit] Workflow overview

[edit] 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.

[edit] Parameters

Input table

Enrichment Weight Column

Enter the name of the column from the Input table with numerical values

Species

Results folder