. Author manuscript; available in PMC: 2010 Jan 4.

Published in final edited form as: Commun Stat Theory Methods. 2009;38(18):3445–3460. doi: 10.1080/03610920802696588

Table 6.

Comparison of Results from the Scleroderma Data: Cases vs. Controls

	p_h₁	p_h₂	p_h₃	p_h₄	p_h₅	p_h₆
	HAPLO.STATS
Cases	0.2566	0.0157	0.5623	0.0473	0.0046	0.1134
Controls	0.2353	0.0179	0.5690	0.0444	0.0022	0.1312
Likelihood ratio statistic		2.0078		P value	0.880
	New Method
Cases	0.2652	0.0160	0.5533	0.0447	0.0000	0.1209
Controls	0.2473	0.0185	0.5559	0.0429	0.0000	0.1355
Likelihood ratio statistic		1.2301		P value	0.964

Note: The results were from the haplotype analysis of 486 scleroderma cases and 254 healthy controls. The column heading ( p_{h_i} 's ) denotes the frequencies of the haplotypes that appeared in the data. The entries with row headings “cases” and “controls” are estimates of haplotype frequencies for cases and controls, respectively. The entries with “likelihood ratio statistic” are likelihood ratio test statistics and associated P values. The P values were calculated based on 1,000 simulations.