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. Author manuscript; available in PMC: 2011 Dec 6.
Published in final edited form as: Nat Genet. 2010 Jun 20;42(7):565–569. doi: 10.1038/ng.608

Table 2.

Heritability estimates averaged over 30 simulations based upon the observed genotype data.

# Causal variants h2 a Est. h2 (s.e.m.)b Est. h2 (s.e.m.)c Est. h2 (s.e.m.)d
MAF ≤ 0.5e 2000 0.8 0.817 (0.014) 0.678 (0.014) 0.812 (0.014)
2000 0.5 0.513 (0.015) 0.428 (0.015) 0.512 (0.015)
3000 0.8 0.831 (0.015) 0.693 (0.016) 0.831 (0.016)
3000 0.5 0.510 (0.016) 0.424 (0.017) 0.507 (0.017)
MAF ≤ 0.1 2000 0.8 0.591 (0.015) 0.433 (0.014) 0.804 (0.026)
2000 0.5 0.367 (0.016) 0.271 (0.016) 0.504 (0.030)
3000 0.8 0.620 (0.016) 0.462 (0.016) 0.856 (0.029)
3000 0.5 0.384 (0.020) 0.287 (0.019) 0.533 (0.036)
a

True heritability parameter.

b

Estimated h2 based on genetic relationship estimated from all of the SNPs (~295K), including the causal variants.

c

Estimated h2 based on relationship estimated from the SNPs, excluding the causal variants.

d

Estimated h2 based on relationship estimated from the SNPs, excluding the causal variants, and adjusted for prediction error with equation [9].

e

Minor allele frequencies of the causal variants. s.e.m. (standard error of the mean) was estimated over 30 simulations.