TABLE 2.

Gene set enrichment analysis in M1 and M2 subtype in the TCGA cohort (the discovery cohort) using the Broad Institute 50 Hallmarks gene sets.

Enriched Hallmark functions	Normalized enrichment score (NES)	Nominal p-value	FDR (q-value)
Protein secretion*	1.85	0.000	0.214
UV response*	1.62	0.015	0.228
mTORC1 signaling*	1.67	0.022	0.211
Heme metabolism*	1.52	0.039	0.228
Unfolded protein response	1.69	0.020	0.383
DNA repair	1.56	0.022	0.282
MYC targets	1.68	0.035	0.259
Glycolysis	1.45	0.069	0.232
Androgen response	1.47	0.071	0.231
Angiogenesis	1.47	0.083	0.250
Adipogenesis	1.44	0.087	0.229
Peroxisome	1.39	0.097	0.253
G2M checkpoint	1.55	0.105	0.228
E2F targets	1.52	0.127	0.209

* = Significant based on both nominal p-value (≤0.05) and FDR (≤0.25).