Effects of QTL parameters and marker density on efficiency of Haley–Knott regression interval mapping of QTL with complex traits and use of artificial neural network for prediction of the efficiency of HK method in livestock
Nobari, K.; Nassiry, M.R.; Aslaminejad, A.A.; Tahmoorespur, M.; Esmailizadeh, A.K.
Journal of Applied Animal Research 40(3): 247-255
ISSN/ISBN: 0971-2119 DOI: 10.1080/09712119.2012.667647
Dominance effect refers to the allele interaction in a locus. In this study, different portions of dominance standard deviations underlying quantitative trait loci (QTL) effect were considered. The F2 design is frequently employed in QTL mapping experiments using Haley and Knott regression method for QTL mapping analysis. This simulation study is carried out to consider the effect of the total standard deviation of QTL (SDQ) with different portions of additive/dominance effects in the context of different levels of population size, marker spacing and relative position of QTL from marker bracket on power of detecting QTL, precision of estimated QTL position and additive and dominance effects. The other aims of the study were to design an optimal artificial neural network (ANN) model to predict Haley Knott (HK) results for more combinations of simulated parameters. SDQ of QTL strongly affected the power of QTL detection, therefore, in every combination of other parameters when SDQ is either .5 or .8, powe.