Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Proc Natl Acad Sci U S A
Authors
Keywords
Abstract

Although genomewide RNA expression analysis has become a routine tool in biomedical research, extracting biological insight from such information remains a major challenge. Here, we describe a powerful analytical method called Gene Set Enrichment Analysis (GSEA) for interpreting gene expression data. The method derives its power by focusing on gene sets, that is, groups of genes that share common biological function, chromosomal location, or regulation. We demonstrate how GSEA yields insights into several cancer-related data sets, including leukemia and lung cancer. Notably, where single-gene analysis finds little similarity between two independent studies of patient survival in lung cancer, GSEA reveals many biological pathways in common. The GSEA method is embodied in a freely available software package, together with an initial database of 1,325 biologically defined gene sets.

Year of Publication
2005
Journal
Proc Natl Acad Sci U S A
Volume
102
Issue
43
Pages
15545-50
Date Published
2005 Oct 25
ISSN
0027-8424
URL
DOI
10.1073/pnas.0506580102
PubMed ID
16199517
PubMed Central ID
PMC1239896
Links
Grant list
T32 CA009172 / CA / NCI NIH HHS / United States