Derivation of significance thresholds:

Significance of each QTL was determined based on a F statistic that was computed from sums of squares explained by the additive and dominance coefficients for the QTL. Significance thresholds of the F statistic were derived at the chromosomewise- and genomewise levels on a single trait basis by the permutation test of Churchill and Doerge (1994). A total of 10.000 random permutations of the data were used. Because computational requirements prevented permutation tests to be conducted for all traits, significant thresholds were derived based on five representative traits: carcass weight, last rib backfat, loin eye area, cholesterol and marbling. Average thresholds across these five traits were used for significance testing for all traits.

Significance Thresholds:

Genome-wide Thresholds:

Significance Threshold at the 5% level: 8.21

Significance Threshold at the 1% level: 9.88