Association analysis of complex diseases using triads, parent-child dyads and singleton monads

BMC Genomic Data

Table 4 Results of the proposed likelihood ratio tests of SNP rs2166975 and parameter estimates in the region of gene TGFA for cleft palate only data in Carter et al. [[1]]

Model	Data used	MLEs		Test results
Unr		$\hat{p}$	( $\tilde{p}$ , $\tilde{ψ_{1}}$ , ${\tilde{ψ}}_{2}$ )	LRT	p-value
	FT + PD + AM	0.250	(0.226, 1.260, 1.660)	3.821	0.148
	FT + PD	0.246	(0.226, 1.279, 1.413)	2.994	0.224
	FT	0.245	(0.221, 1.365,1.508)	4.077	0.130
Rec		$\hat{p}$	( $\tilde{p}, {\tilde{ψ}}_{2}$ )	LRT	p-value
	FT + PD + AM	0.250	(0.243, 1.295)	1.245	0.265
	FT + PD	0.246	(0.244, 1.087)	0.116	0.733
	FT	0.245	(0.243, 1.095)	0.113	0.737
Dom		$\hat{p}$	( $\tilde{p}, {\tilde{ψ}}_{1})$	LRT	p-value
	FT + PD + AM	0.250	(0.233, 1.247)	2.407	0.121
	FT + PD	0.246	(0.228, 1.275)	2.829	0.093
	FT	0.245	(0.224, 1.362)	3.938	0.047
Mult		$\hat{p}$	( $\tilde{p}, {\tilde{ψ}}_{1})$	LRT	p-value
	FT + PD + AM	0.250	(0.226, 1.275)	3.792	0.051
	FT + PD	0.246	(0.226, 1.232)	2.711	0.100
	FT	0.245	(0.221, 1.292)	3.585	0.058
Add		$\hat{p}$	( $\tilde{p}, {\tilde{ψ}}_{1})$	LRT	p-value
	FT + PD + AM	0.250	(0.226, 1.281)	3.688	0.055
	FT + PD	0.246	(0.225, 1.256)	2.847	0.092
	FT	0.245	(0.220, 1.332)	3.830	0.050

The Sub-sample sizes are n = 296, m = 62, s = 15, (n₁, n₂, n₃, n₄, n₅, n₆, n₇, n₈, n₉, n₁₀) = (0, 6, 5, 19, 13, 30, 6, 67, 54, 96), (m₁, m₂, m₃, m₄, m₅, m₆, m₇) = (0, 3, 4, 11,11, 8, 25), and (s0, s1, s2) = (7, 3, 5). Abbreviations: FT = Full triads, PD = Parent-child dyads, and AM = Affected monads.

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