Evaluating aggregate effects of rare and common variants in the 1000 Genomes Project exon sequencing data using latent variable structural equation modeling

Table 3 True-positive (TP), false-positive (FP), and false-negative (FN) genes for Q1 over 100 replicates (99–136 and 138–200) in GAW17 exon sequencing data (unrelated individuals)

	Adjusted model 1^a			Adjusted model 2^b			Adjusted model 3^c			Adjusted model 4^d			Adjusted model 5^e
	TP	FP	FN	TP	FP	FN	TP	FP	FN	TP	FP	FN	TP	FP	FN
Mean	1.80	43.48	7.20	1.23	5.69	7.77	1.23	5.43	7.77	1.13	1.25	7.87	1.13	1.20	7.87
Standard deviation	0.72	26.78	0.72	0.42	11.38	0.42	0.42	11.20	0.42	0.34	2.35	0.34	0.34	2.26	0.34
Range	1–4	2–122	5–8	1–2	0–43	7–8	1–2	0–42	7–8	1–2	0–14	7–8	1–2	0–14	7–8

^a Adjusted for Age, Smoking, Sex, and population (Pop1).
^b Adjusted for Age, Smoking, Sex, Pop1 and top 10 PCs.
^c Adjusted for Age, Smoking, Sex, Pop1 and top 12 PCs.
^d Rare variants collapsed, adjusted for Age, Smoking, Sex, Pop1 and top 10 PCs.
^e Rare variants collapsed, adjusted for Age, Smoking, Sex, Pop1 and top 12 PCs.

ISSN: 1753-6561