Variances of GEBVs of 10-SNP windows across the genome. Data sets were generated by permutation (Permuted dataset), simulation with linkage equilibrium in founders (LE simulation dataset), and simulation with initial linkage disequilibrium (LD simulation dataset). The bottom panel show window variances obtained for the original QTLMAS 2010 dataset (Original dataset), as well as the location and variances of true QTLs, along with their mode of inheritance (Additive = additive QTL, Epistatic = epistatic QTL, Imprinted = imprinted QTL). Horizontal lines show the 10% (solid) and 20% (dash) chromosome-wise thresholds for window variance derived from the LD simulation.
Sun et al. BMC Proceedings 2011 5(Suppl 3):S13 doi:10.1186/1753-6561-5-S3-S13