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<p class="MsoNormal">Gene Set Enrichment Analysis (GSEA) is a computational method that determines whether an <em>a priori</em> defined set of genes shows statistically significant, concordant differences between two biological states (e.g. phenotypes). The algorithm is described in the following paper and supplementary information:<br />
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<div style="margin-left: 40px;"> Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S. &amp; Mesirov, J. P. (2005) Proc. Natl. Acad. Sci. USA 102, 15545-15550.<span style="font-weight: bold;"> <strong>Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression             profiles. </strong></span>[http://www.broad.mit.edu/gsea/doc/subramanian_tamayo_gsea_pnas.pdf pdf]<br />
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<span style="font-weight: bold;">             <span style="font-weight: bold;">Supplementary info for Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide             expression             profiles.</span><span style="text-decoration: underline;"> </span></span>[http://www.broad.mit.edu/gsea/doc/subramanian_tamayo_gsea_pnas_supp_info.pdf pdf] <br />
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Examples from the GSEA paper are provided [http://www.broad.mit.edu/gsea/resources/datasets_index.html here].<span style="font-weight: bold;"><br />
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