Table 3 Variance components estimated from datasets generated by permutation, simulation with linkage equilibrium in founders (LE simulation), and simulation with initial linkage disequilibrium (LD simulation), and thresholds for 10-SNP window variances based on 10% and 20% chromosome-wise type I error rates.
From: Genomic breeding value prediction and QTL mapping of QTLMAS2010 data using Bayesian Methods
Methods | Variance Components | Window variance threshold | |||
|---|---|---|---|---|---|
Genotypic | Residual | Total | 10% | 20% | |
Permutation | 3.15 | 98.59 | 101.74 | 0.0011 | 0.0009 |
LE simulation | 20.83 | 79.84 | 100.67 | 0.0204 | 0.0094 |
LD simulation | 17.14 | 83.40 | 100.55 | 0.1645 | 0.0887 |
Original1 | 47.13 | 53.48 | 100.61 | – | – |