Applications of Different Weighting Schemes to Improve Pathway-Based Analysis

Table 2

Top 20 type II diabetes pathways selected in the global test under each weighting scheme (PID stands for pathway identification number).

	Weighting schemes
	Uniform		absT		Qdiff		RWV		RWM
Ranks	PID	𝑃-value	PID	𝑃-value	PID	𝑃-value	PID	𝑃-value	PID	𝑃-value
1	158	.0098	40	.0002	140	.0004	140	.0003	195	.0000
2	264	.0114	140	.0003	57	.0008	92	.0006	172	.0000
3	140	.0218	13	.0003	41	.0015	139	.0009	127	.0001
4	4	.0331	37	.0004	4	.0017	4	.0011	2	.0001
5	228	.0431	57	.0005	264	.0018	264	.0015	76	.0001
6	168	.0474	44	.0006	158	.0018	158	.0015	235	.0001
7	73	.0503	92	.0006	20	.0018	157	.0022	199	.0001
8	139	.0509	278	.0006	157	.0018	20	.0024	198	.0001
9	204	.0555	66	.0007	193	.0018	228	.0028	261	.0001
10	92	.0618	56	.0007	26	.0019	203	.0035	277	.0001
11	162	.0625	51	.0007	92	.0027	26	.0048	158	.0001
12	203	.0746	109	.0007	232	.0035	17	.0049	80	.0001
13	229	.0784	139	.0008	37	.0036	193	.0064	263	.0001
14	201	.0817	104	.0009	58	.0040	73	.0066	19	.0001
15	120	.0823	4	.0010	59	.0040	208	.0069	165	.0001
16	76	.0831	217	.0010	60	.0040	8	.0073	42	.0001
17	128	.0847	110	.0010	61	.0040	79	.0077	144	.0001
18	274	.0937	43	.0010	62	.0040	16	.0078	162	.0001
19	247	.0968	36	.0011	63	.0040	252	.0090	258	.0001
20	22	.1015	228	.0011	139	.0049	173	.0093	1	.0001
Total 𝑃-values		1.2244		.0142		.0540		.0875		.0018
Average 𝑃-value		.0612		.0007		.0027		.0044		.0001