Ranking of the ten most downregulated gene sets analyzed with GSEA 2.0.1.

All genes on the chip were ranked by difference in expression between PCOS patients and control subjects using the t-test. An enrichment score (ES) was assigned to each gene, and the maximum ES (MES) was calculated for each gene set. NES: Enrichment score normalized for differences in gene set size. FDR q-value: False Discovery Rate. FWER p-value: Family Wise Error Rate.