Identification of genes and variants associated with quantitative traits using Bayesian factor screening

BMC Proceedings

Table 5 Marginal posterior probability for Q1-associated genes

Gene	Posterior probability (mean of 10 replicates)		Posterior probability > 0.5		Posterior probability > 0.1
	m = 3	m = 6	m = 3	m = 6	m = 3	m = 6
ARBT	0.00521	0.00175	0	0	0	0
ELAVL4	0.00001	0.00065	0	0	0	0
FLT1	0.98967	0.96252	10	10	10	10
FLT4	0	0.00053	0	0	0	0
HIF1A	0.00596	0.00704	0	0	0	0
H1F3A	0	0	0	0	0	0
KDR	0.32353	0.40953	4	3	4	6
VEGFA	0.0006	0.0434	0	0	0	1
VEGFC	0.00129	0.00256	0	0	0	0
Non-Q1			5	7	18	51
False-positive discovery rate			5/19	7/20	18/32	51/68

Marginal posterior probabilities of nine Q1-associated genes averaged over 10 replicates are listed in the second and third columns. For each gene, the number of times that its posterior probability is greater than 0.5 is listed in columns 4 and 5, and the number of times that it is greater than 0.1 is listed in columns 6 and 7. The second to the last row lists the total number of times that genes not associated with Q1 have a posterior probability greater than 0.1 and 0.5. The false-positive discovery rate is given in the last row. The results at m = 3 and m = 6 are listed in separate columns, where m is the fixed number of factors entertained in a model of the model space.

ISSN: 1753-6561