01515nam a2200229 a 450000100080000000500110000800800410001910000200006024501020008026001480018252007770033065300170110765300170112465300210114165300200116270000160118270000200119870000160121870000160123470000190125070000160126910619202021-03-31       2014    bl uuuu     u01u1 u    #d1 aFORNERIS, N. S.  aQuality control of genotypes using heritability estimates of gene content.h[electronic resource]  aIn: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.471.c2014  aABSTRACT. Quality control filtering of single nucleotide polymorphisms (SNP) is a key step when analyzing genomic data. Here, we present a practical method to identify poorly genotyped SNPs by detecting those for which gene content deviates from the pedigree-based expectation. This can be achieved by estimating the heritability of gene content at each marker, defined as the number of copies of a particular reference allele in a genotype of an animal (0, 1 or 2). The method uses Restricted Maximum Likelihood (REML) to estimate heritability of gene content at each SNP and also builds a likelihood ratio test statistic to test for zero error variance in genotyping. The proposed method is illustrated with a real dataset with genotypes from Illumina PorcineSNP60 chip.  aGene Content  aHeritability  aLikelihood Ratio  aQuality Control1 aLEGARRA, A.1 aVITEZICA, Z. G.1 aTSURUTA, S.1 aAGUILAR, I.1 aCANTET, R.J.C.1 aMISZTAL, I.