Table 1 Comparison of collapsing within family data and collapsing within population-based data

Chromosome	Gene	Number of synonymous SNPs	Number of nonsynonymous SNPs	Total number of SNPs	Number of risk SNPs	Family		Population
						Power (All) (%)^a	Power (nonsynonymous) (%)^b	Power (All) (%)^a	Power (nonsynonymous) (%)^b
6	VEGFA	2	2	4	1	100	100	13	10
4	VEGFC	0	1	1	1	100	100	0	0
10	SIRT1	9	14	23	9	19	47	7	8
17	SREBF1	5	16	21	10	19	36	17	18
1	PIK3R3	3	2	5	1	11	1	2	2
9	VLDLR	8	15	23	8	10	4	10	9
8	PLAT	14	11	25	8	8	34	6	7
5	FLT4	3	5	8	2	6	13	15	15
4	KDR	5	9	14	8	0	0	45	35
18	PIK3C3	5	1	6	1	0	0	38	0
8	PTK2B	6	3	9	3	0	0	31	4
14	SOS2	1	6	7	2	0	0	22	25
13	FLT1	8	17	25	8	2	1	21	17
3	BCHE	3	25	26	13	0	1	19	19
11	PDGFD	0	6	6	4	6	6	19	19
14	HIF1A	2	5	7	3	0	0	17	17
8	PTK2	4	5	9	2	0	0	14	6
1	PIK3C2B	22	38	60	23	2	0	14	16
1	SHC1	3	3	6	1	0	0	13	5
6	VNN1	4	2	6	1	1	2	7	13

Power is calculated based on the threshold P< 0.05. Because of limited space, only those genes whose power is greater than 10% are shown.
^a All rare SNPs were collapsed.
^b Only nonsynonymous rare SNPs were collapsed.

ISSN: 1753-6561