Genome-wide association with bone mass and geometry in the Framingham Heart Study

BMC Medical Genetics

Table 4 Associations of bone traits with selected candidate genes for osteoporosis with a FBAT or GEE p-value < 0.05

Chrom	Candidate Gene	Published SNP	Ref.	100K SNP	r²*	Physical Position	Lowest P-value by GEE	GEE Phenotype	Lowest P-value by FBAT	FBAT Phenotype
1	*MTHFR*	rs1801133	[38]	rs1801133	self	11,790,644	0.033	ShaftZ1rm	0.042	NSA1
			[39]
			[28]
6	*ESR1*	rs2234693	[45]	rs3866461	0.223	152,238,835	0.014	NSAm	0.003	NeckLengf
				rs1884052	0.004	152,383,480	0.002	ShaftZ1R	0.023	NeckW1rf
				rs3778099	0.002	152,510,689	0.003	BUA	0.019	FNBMD
		rs9340799	[45]
11	*LRP5*	rs4988321	[40, 46]	rs4988300	no data	67,845,407	0.038	ShaftZ1rm	0.025	FNBMDf
		rs627174		rs4988300	no data
		rs3736228	[40, 41]	rs4988300	0.030
12	*VDR*	rs11568820	[29]	rs2189480	0.049	46,550,095	0.011	NeckZ1rm	0.021	LSBMD
		rs10735810	[29]	rs2189480	no data
		rs1544410	[29]	rs2189480	0.045
		rs7975232	[29]	rs2189480	no data
		rs731236	[29]	rs2189480	no data
15	*CYP19*	rs700518	[47]	rs10519297	0.902	49,328,952	0.002	NSA1	0.859	NSA1
			[48]	rs2008691	0.239	49,335,602	0.003	NSA1	0.012	NSA1
		rs4775936	[49]	rs10519297	0.58
		rs10046		rs10519297	0.82
		rs11575899		rs10519297	no data
17	*COL1A1*	rs1107946	[50]	rs2075555	no data	45,629,290	0.034	NeckW1rf	0.010	ShaftWm
		rs11327935	[51]	rs2075555	no data
		rs1800012	[52]	rs2075555	no data

* r² between the 100K SNP and a corresponding published SNP (column to the left)
p-values < 0.005 are shown in bold.

ISSN: 1471-2350