HOW TO PERFORM GSEA - A tutorial on gene set enrichment analysis for RNA-seq

In this tutorial, we explain what gene set enrichment analysis (GSEA) is and what it offers you. We show you how to run the analysis on your computer and take you through how to interpret the outputs. The tutorial also covers leading edge analysis and analysis of gene networks with Cytoscape.

*** Editors note: If you are having trouble loading your gct file, you should save it as .gct.txt rather than just .txt

The timestamps for the following sections are:

0:09 What is GSEA?
9:09 What software do I need?
9:55 What input files do I need to create?
14:12 What gene set files are available?
19:04 How do I use GSEA software?
35:57 What is leading edge analysis?
40:05 Visualising enriched gene sets as a network

GSEA website (download free software here)
https://www.gsea-msigdb.org/gsea/inde...

GSEA User Guide
https://www.gsea-msigdb.org/gsea/doc/...

The Gene Set Database
https://www.gsea-msigdb.org/gsea/msig...

Cytoscape network analysis software
https://cytoscape.org/

This tutorial on GSEA is brought to you by Dr Katherine West in the College of Medical Veterinary and Life Sciences at the University of Glasgow, Scotland. Look out for our other videos in this tutorial series that will help you get the most out of your gene expression analysis.

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https://www.gla.ac.uk/people/katherin...
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