Introduction

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.

Publications

  1. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
    Cite this
    Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP, 2005-10-01 - Proceedings of the National Academy of Sciences of the United States of America

Credits

  1. Aravind Subramanian
    Developer

    Broad Institute of Massachusetts Institute of Technology and Harvard, 320 Charles Street, United States of America

  2. Pablo Tamayo
    Developer

  3. Vamsi K Mootha
    Developer

  4. Sayan Mukherjee
    Developer

  5. Benjamin L Ebert
    Developer

  6. Michael A Gillette
    Developer

  7. Amanda Paulovich
    Developer

  8. Scott L Pomeroy
    Developer

  9. Todd R Golub
    Developer

  10. Eric S Lander
    Developer

  11. Jill P Mesirov
    Investigator

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Summary
AccessionBT006384
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesR
User InterfaceTerminal Command Line
Download Count0
Submitted ByJill P Mesirov