Table 2.

Highly ranked SNPs associated with BSS

SNPs Name	Chr	MapInfo	Alleles	Location	P valuea	Gene(s)	Mutation(s)	Bp	F_C
exm68141	1	70890007	[A/G]	EXON	0.00904	CTH	Missense_V166M, V134M,Silent	70890007	0.222
exm279897	2	238742929	[T/C]	EXON	0.00904	RBM44	Missense_I1015T	238742929	0.222
exm2090870	5	145537108	[T/C]	EXON	0.007661	LARS	Missense_R308H	145537108	0.625
exm508367	5	177633872	[A/T]	EXON	0.004678	HNRNPAB	Missense_Y173F,	177633872	1
exm509539	5	178634672	[T/C]	EXON	0.008741	ADAMTS2	Missense_V245I	178634672	0.583
exm514146	6	6167833	[A/T]	EXON	0.003445	F13A1	Missense_L589Q	6167833	1
exm534246	6	32038079	[T/G]	EXON	0.00572	TNXB	Missense_F1701L	32038079	0.357
exm597614	7	975046	[C/G]	EXON	0.001565	ADAP1	Missense_V60L	975046	1
exm648916	7	106515241	[T/C]	EXON	0.007888	PIK3CG	Missense_A795V	106515241	0.3
exm1042751	12	120580489	[T/C]	EXON	0.00394	GCN1L1	Missense_R1884Q	120580489	0.333
exm1091040	14	23945331	[C/G]	EXON	0.006545	NGDN	Missense_V172L	23945331	0.444
exm1133291	14	105415882	[T/C]	EXON	0.003676	AHNAK2	Missense_R1969Q	105415882	0.5
exm1186826	15	89401134	[T/C]	EXON	0.008741	ACAN	Missense_L1773P	89401134	0.5
exm1233625	16	30666358	[A/G]	EXON	0.004862	PRR14	Missense_R356Q	30666358	0.556
exm1391659	18	65180127	[A/C]	EXON	0.007982	DSEL	Missense_L583F	65180127	0.5
exm1925094	19	15567000	[A/G]	EXON	0.004898	RASAL3	Missense_C546R	15567000	0.313
exm1456897	19	36134208	[A/G]	EXON	0.005775	ETV2	Missense_D90N	36134208	0.438
exm1593372	22	24179922	[G/C]	EXON	0.006903	DERL3	Missense_F149L	24179922	0.389
exm1618561	22	46763654	[T/C]	EXON	0.003973	CELSR1	Missense_Y2684C	46763654	0.444
exm1631314	X	21674603	[A/G]	EXON	0.006928	KLHL34	Missense_A435V	21674603	0.667
exm1651515	X	105451287	[T/A]	EXON	0.009534	MUM1L1	Missense_D621V	105451287	1
exm1656996	X	129149891	[A/G]	EXON	0.004388	BCORL1	Missense_R1048Q	129149891	0.25
exm1611652	22	41546158	[A/C]	EXON	0.004417	EP300	Missense_S106G	41546158	0.611

^aChi-square test; F_C, the frequency of this variant in cases