Online Appendix Table 4. Ranking of the top-twenty upregulated GO terms analyzed with MAPPFinder 2.0.

GO Name / GO Type / Changed (n) / Measured (n) / In GO (n) / Changed (%) / Z
score / Permute
p-value / FWER p-value
Enzyme regulator activity / F / 92 / 577 / 597 / 15.94 / 4.62 / <0.0005 / 0.542
Cytoskeleton / C / 109 / 711 / 764 / 15.33 / 4.60 / <0.0005 / 0.543
Enzyme activator activity / F / 41 / 209 / 212 / 19.62 / 4.51 / <0.0005 / 0.617
GTPase regulator activity / F / 48 / 259 / 265 / 18.53 / 4.44 / <0.0005 / 0.637
Contractile fiber / C / 12 / 38 / 38 / 31.58 / 4.34 / 0.0005 / 0.648
Protein binding / F / 446 / 3691 / 3828 / 12.08 / 4.31 / <0.0005 / 0.649
Guanyl-nucleotide exchange factor activity / F / 25 / 111 / 114 / 22.52 / 4.29 / 0.0005 / 0.651
Immune cell mediated cytotoxicity / P / 3 / 4 / 4 / 75.00 / 4.27 / 0.001 / 0.86
Glycogen catabolism / P / 3 / 4 / 4 / 75.00 / 4.27 / 0.001 / 0.999
Natural killer cell mediated cytotoxicity / P / 3 / 4 / 4 / 75.00 / 4.27 / 0.001 / 0.999
CCAAT-binding factor complex / C / 3 / 4 / 4 / 75.00 / 4.27 / 0.003 / 0.999
Epithelial cell differentiation / P / 3 / 4 / 4 / 75.00 / 4.27 / 0.003 / 0.999
Type 1 serine/threonine specific protein phosphatase inhibitor activity / F / 3 / 4 / 5 / 75.00 / 4.27 / 0.005 / 0.999
Structural constituent of bone / F / 3 / 4 / 4 / 75.00 / 4.27 / 0.007 / 0.999
Intracellular signaling cascade / P / 144 / 1024 / 1065 / 14.06 / 4.19 / 0.0005 / 1
Regulation of DNA replication initiation / P / 2 / 2 / 2 / 100.00 / 4.19 / 0.003 / 1
Translation repressor activity\, nucleic acid binding / F / 2 / 2 / 2 / 100.00 / 4.19 / 0.009 / 1
BRE binding / F / 2 / 2 / 2 / 100.00 / 4.19 / 0.009 / 1
Hair cell differentiation / P / 2 / 2 / 2 / 100.00 / 4.19 / 0.013 / 1
Auditory receptor cell fate commitment / P / 2 / 2 / 2 / 100.00 / 4.19 / 0.013 / 1

A fold change ≥ 1.05 and a p-value 0.05 were used as the criteria for gene expression changes between PCOS patients and controls. The statistical rating of the relative gene expression activity was provided by the z-score. The z-score was based on N=13896 genes linked to GO terms and R=1423 of these genes meeting the criteria for change in expression. Changed (n): number of genes changed, Measured (n): number of genes measured on the chip, In GO (n): number of genes in the GO term, Changed (%): Changed (n) divided by Measured (n). FWER p-value: Family Wise Error Rate.