The effects of genotyping errors and interference on estimation of genetic distance

Abstract

Analysis of linkage data has typically been carried out assuming genotyping errors are absent. Recent studies have shown, however, that the impact of ignoring genotyping errors can be great, especially in dense marker maps [Buetow, Am J Hum Genet 1991;49:985-994; Lincoln and Lander, Genomics 1992;14:604-610]. Because most organisms exhibit positive chiasma interference, we use the χ2model [Foss et al., Genetics 1993;144:681-691] to examine the role interference plays in the estimation of genetic distance in the presence of genotyping errors. For simplicity, we confine our analyses to samples of 1,000 fully informative gametes. Our results support previous findings that ignoring errors inflat..