Difference between revisions of "Gene set enrichment analysis (Gene table) (workflow)"
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Revision as of 13:28, 16 May 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
