|Results of a genome scan for QTL associated with stress response using half-sib regression interval mapping|
|Omy||cM||Trait||Sire-dam family4||LR1||F-value2||FChromWide P=0.053||FExperWide P=0.054||P-value5||PGenomeWide 6||hq27||Left flanking marker||Right flanking marker|
1The likelihood ratio (LR) test statistic.
2Asymptotically F-test statistic with the degrees of freedom(DF) being the number of sires or dams included for the numerator, and the total number of offspring minus twice the number of sires or dams for the denominator. The QTL with F-value ≥ FChromWide P=0.05 was defined as suggestive QTL (*); and QTL with F-value ≥ FExperWide P=0.05 or PGenomeWide ≤ 0.05 was defined as significant QTL (**).
3Chromosome-wide F-value at P=0.05 was estimated using 10,000 permutations with software GridQTL.
4Experiment-wide F-value at P=0.05 was estimated using 10,000 bootstraps with re-sampling with software GridQTL.
5The nominal P-value was calculated assuming an F-value distributed with numerator DF equal to the number of sires or dams, and denominator DF equal to the total number of offspring minus twice the number of sires or dams.
6The genome-wide significance level for detected QTL.
7The proportion of phenotypic variance explained by the QTL.
8The QTL flanking markers OMM1772, OMM1130, BX913059 and OMM5153 had significant Mendelian segregation distortion (P <0.01) in families 2, 4, 5 and 6, respectively.
9The Omy16 QTL had significant statistical support for two QTL segregating (F2QTL vs. 0QTL; DF=10=3.58; F1QTL vs. 0QTL; DF=5=3.60; LR2QTL vs. 0QTL = 33.62) for BLUP3 when fitting a two-QTL model with sire HS families.
10The Sex chromosome QTL had significant statistical support for two QTL segregating (F2QTL vs. 0QTL; DF=10=3.45; F1QTL vs. 0QTL; DF=5=3.10; LR2QTL vs. 0QTL = 32.50) for EBV when fitting a two-QTL model with sire HS families.
Rexroad et al.
Rexroad et al. BMC Genetics 2012 13:97 doi:10.1186/1471-2156-13-97