BMC Proceedings · 2011 · 36 citations · 4 references
Life SciencesBiostatisticsGeneticsGenomic Data AnalysisQuantitative GeneticsStatistical GeneticsAdditive Genetic EffectsBreeding ValueQuantitative Trait AnalysisQuantitative Trait LociQuantitative Trait Loci MappingQuantitative Trait Locus MappingAdditive Qtl EffectsBinary Trait AnalysisComplex Trait ArchitectureGenetic Architecture Of Complex TraitsGenomic Breeding ValueLinkage Disequilibrium PatternsParent-of-origin EffectsQuantitative Trait Loci (Qtl) Mapping
BACKGROUND: Objective was to simulate the data for the QTLMAS 2010 Workshop under a model that includes major additive, epistatic and parent-of-origin effects. RESULTS: Data were simulated for 3226 individuals in 5 generations. Genomic data for 5 chromosomes were simulated using coalescent model. In total, the data included 10,031 SNPs, 30 additive QTLs, 2 interacting QTL pairs, and 3 imprinted loci. The density was 20 SNPs/1Mb, whereas mean linkage disequilibrium between adjacent SNPs was 0.1. One quantitative and one binary trait were simulated with heritability of 0.39-0.52 and additive correlation of 0.59. The data can be used as a benchmark for comparison of QTL mapping methods and models for genomic breeding value estimation under complex genetic architecture.
4
Calibrating a coalescent simulation of human genome sequence variation
S. F. Schaffner, Catherine K. Foo, Stacey Gabriel et al. · Genome Research · 2005 · 650 citations · Full text
Life Sciences, Biology, Genetics +17
David A. Magee, K. M. Sikora, E. W. Berkowicz et al. · BMC Genetics · 2010 · 62 citations · Full text