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Copy number variations(CNVs) are known as one of the most important factors in susceptibility to geneticdisorders because they a ect expression levels of genes. In previous studies, pyrosequencing, mini-sequencing,real-time polymerase chain reaction(PCR), invader assays and other techniques have been used to detect CNVs.However, the higher the copy number in a genome, the more dicult it is to resolve the copies, so a more accuratemethod for measuring CNVs and assigning genotype is needed. PCR followed by a quantitative oligonucleotideligation assay(qOLA) was developed for quantifying CNVs. The aim of this study was to compare the two meth-ods for detecting and quantifying the CNVs of duplicated gene: the published pyrosequencing assay(pyro CNV)and the newly developed qOLA CNV. The accuracy and precision of the assay were evaluated for porcine KIT,which was selected as a model locus. Overall, the root mean squares(RMSs) of bias and standard deviation ofqOLA CNV were 2.09 and 0.45, respectively. These values are less than half of those of pyro CNV.Keywords: Copy number variation, quantitative oligonucleotide ligation assay, pyrosequencingassay, root mean square.

Comparison of Methods for Detecting and Quantifying Variation in Copy Numbers of Duplicated Genes