GSEA: Gene Set Enrichment Analysis

Introduction

Gene Set Enrichment Analysis (GSEA) is a bioinformatics tool used for analyzing gene expression data, aiming to reveal the functions and biological significance of whole sets of genes under different experimental conditions. The basic principle of GSEA is to rank genes according to their expression levels under different experimental conditions, and then detect the enrichment level of the whole gene set in specific biological processes or pathways through enrichment analysis methods. The advantage of GSEA is that it can detect the enrichment status of the entire gene set, rather than just focusing on the differential expression of individual genes.

Data format

1.File size limit of 10MB.

Run demo

Example files are run with gene_expression.txt, group.txt selected by default, GO_Biological_Process_2023, GO_Cellular_Component_2023, GO_Molecular_Function_2023 gene set checked, and Phenotype analysis method, with output images in pdf format.

Result

The output result is as follows:

gseapy.gene_set.gsea.report.csv:Gene set enrichment analysis result table, including enrichment score and p-value

gsea(folder):Gene enrichment heatmap for each gene set; enrichment score for each gene set

#gene_sets.gmt:Gene set details file, including gene symbols provided under each gene set

#gseapy.gsea.140242746593232.log:Execution log, can be used to check if the task ran successfully