Table 2. .

The Most-Significant Gene Sets and Pathways Identified by a Preranked Module of the GSEA Algorithm for Two GWA Studies of PD and One GWA Study of AMD

		Rank of Most Significant
Study and Gene Set or Pathways	Set Size	SNP	Gene	Nominal P	FDR	FWER P
Fung et al.12 stage 1 association study of PD:
Glutamate receptor activity	39	109	77	<.0001	.003	.003
O-glycan biosynthesis	23	155	114	<.0001	.002	.003
Ligand-gated ion channel activity	97	207	153	<.0001	.001	.004
Transmembrane receptor protein phosphatase activity	20	147	106	<.0001	.004	.015
GABA receptor activity	23	109	77	<.0001	.010	.048
Maraganore et al.13 tier 1 association study of PD:
Axon guidance	56	44	31	<.0001	.005	.006
CNS development	130	118	86	<.0001	.034	.068
Glutamate receptor activity	35	34	23	.0007	.069	.189
Klein et al.25 association study of AMD:
CFH-related pathway	4	1	1	<.0001	.004	.004
ABC transporters	42	157	111	<.0001	.046	.088
Skeletal muscle fiber development	25	75	51	<.0001	.065	.181