Application of pooled genotyping to scan candidate regions for association with HDL cholesterol levels

Table 2 Haplotype block-fitting results and analysis of variance.

	All blocks	Informative^a	p< 0.05^b
Haplotype blocks	955	507	172
SNPs passing quality filters	4387	3758	1934
SNPs contributing to fits	4171	3578	1833
Fitted degrees of freedom	1736	1143	442
Residual degrees of freedom	2435	2435	1391
% degrees of freedom used	42%	32%	24%
Total sum of squares	2.241	1.947	1.258
Fitted sum of squares	1.725	1.431	1.002
Residual sum of squares	0. 516	0.516	0.256
% variance explained	77%	73%	80%

^a Blocks having redundant information, ie at least as many SNP measurements as common haplotype patterns.
^b Informative blocks for which an F test on the fit of the SNP data to the haplotype structure had p < 0.05.
SNPs, single nucleotide polymorphisms.

ISSN: 1479-7364