SNP-based pathway enrichment analysis for genome-wide association studies

BMC Bioinformatics

Table 2 Seventeen significant pathways (P <= 0.01) discovered in both European-American and African-American ancestry samples of schizophrenia

PATHWAYS		European Ancestry (EA)			African Ancestry (AA)
		Nom P	GENE SIZE	SNP SIZE	Nom P	GENE SIZE	SNP SIZE
HSA04720	Long-term potentiation	0.001	67	66	<0.001	69	135
HSA04270	Vascular smooth muscle contraction	<0.001	107	105	<0.001	113	215
HSA05412	Arrhythmogenic right ventricular cardiomyopathy (ARVC)	<0.001	72	135	<0.001	74	144
HSA04020	Calcium signaling pathway	<0.001	168	165	<0.001	174	337
HSA04972	Pancreatic secretion	0.008	93	91	<0.001	94	184
HSA04360	Axon guidance	<0.001	122	120	<0.001	126	245
HSA04080	Neuroactive ligand-receptor interaction	<0.001	256	248	<0.001	266	509
HSA04510	Focal adhesion	<0.001	186	186	<0.001	191	378
HSA04730	Long-term depression	<0.001	68	129	0.001	68	134
HSA00330	Arginine and proline metabolism	0.001	47	47	0.002	52	102
HSA04970	Salivary secretion	0.003	80	151	0.002	86	166
HSA05146	Amoebiasis	0.009	100	99	0.003	103	199
HSA05414	Dilated cardiomyopathy	<0.001	88	86	0.005	90	173
HSA04070	Phosphatidylinositol signaling system	0.002	75	74	0.006	77	150
HSA04512	ECM-receptor interaction	0.001	81	81	0.007	82	161
HSA04260	Cardiac muscle contraction	0.009	63	61	0.009	67	128
HSA04540	Gap junction	0.003	80	80	0.009	85	165

ISSN: 1471-2105