Using the posterior distribution of deviance to measure evidence of association for rare susceptibility variants

BMC Proceedings

Table 1 Characteristics of the investigated variants in the KDR gene and results for the first replicate

Marker	Order	Position (MB)	Variant	Effect on Q1	MAF (%)	P-value	Deviance difference
							Median	95% credible interval		Proportion > 0
C4S1859	1	55650982	T	–	0.14	0.18	−7.23	−17.66	2.75	0.06
C4S1861	2	55655860	T	0.56	0.22	0.30	−0.72	−11.53	10.04	0.44
C4S1868	3	55657190	G	–	0.07	0.05	−8.12	−18.62	−0.19	0.02
C4S1872	4	55665610	T	–	0.07	0.42	−1.46	−11.99	7.79	0.37
C4S1873	5	55665650	A	0.58	0.07	0.08	−7.65	−18.23	0.28	0.03
C4S1874	6	55665716	C	0.47	0.07	0.57	−1.03	−11.85	7.84	0.41
C4S1877	7	55667703	G	1.08	0.07	0.71	−0.99	−11.83	7.79	0.42
C4S1878	8	55667731	A	0.14	16.50	0.30	−0.09	−11.36	10.67	0.49
C4S1879	9	55668736	A	0.62	0.07	0.70	−0.99	−11.70	7.94	0.41
C4S1881	10	55671466	G	–	0.14	0.18	−7.26	−17.55	2.78	0.06
C4S1884	11	55674315	T	0.30	2.08	0.11	−2.30	−13.10	8.91	0.32
C4S1887	12	55675804	T	0.30	0.07	0.25	−2.09	−12.84	6.68	0.30
C4S1889	13	55676245	G	0.94	0.07	0.71	−0.86	−11.70	7.67	0.42
C4S1890	14	55676288	T	0.42	0.22	0.24	−1.39	−12.26	10.32	0.38
C4S1892	15	55679646	A	–	0.07	0.07	−7.71	−17.89	0.31	0.03
C4S1893	16	55679682	G	–	0.07	0.02	−9.77	−20.28	−1.95	0.01
Any rare variant						0.06	−3.14	−14.08	8.11	0.27

MAF, minor allele frequency. P-value is the probability value from standard logistic regression. “Any rare variant”: 17 out of 697 individuals carried at least one minor variant other than variant 8 and variant 11.

ISSN: 1753-6561