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

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

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