TABLE 4

Cross-validation analysis of QTL detection and comparison to whole data (WD) set results

Conventional F3LHRF-F3
DGYGMSDDGYGMSD
QTL no.
WD99121155
DS8.966.008.315.683.755.93
Range(5–15)(3–10)(1–14)(1–11)(1–11)(2–12)
Embedded Image
WD48.40/59.7545.50/55.4945.70/54.4041.50/56.8520.60/24.8226.00/30.23
DS54.03/66.7042.29/51.5741.02/48.8330.58/41.8921.4/25.7833.86/39.37
VS39.48/48.7431.05/37.8720.05/23.8712.24/16.766.05/7.2917.22/20.02
Bias1.371.362.042.503.541.97
Av. R2 per QTL4.4/5.45.2/6.32.4/2.92.2/2.91.6/1.92.9/3.4
  • The number of detected QTL (QTL no.) and the proportion of phenotypic and genotypic variance explained by the detected QTL (Embedded Image) are reported for each analysis. In the cross-validation process, the number of detected QTL corresponds to the average number of detected QTL across 200 5-split cross-validation detection sets (DS). We also indicated the range of variation of the number of QTL detected (range).Two different types of percentages of variance are given: the average values across detection sets (DS) and validation sets (VS). The ratio between the DS value and the VS value gives an estimate of the selection bias for the percentage of variance explained. The VS values were divided by the average number of QTL detected in DS to estimate the average contribution of each individual QTL to the variation (Av. R2 per QTL).