Multipoint and single point non-parametric linkage analysis with imperfect data.
We used simulation to explore the impact of common data imperfections (i.e., missing parents, genotyping error, map error, and missing genotypes) upon the performance of multipoint and single point linkage analysis in the analyses of linkage data from pairs of siblings affected with an idealized complex trait. The performance of single point and multipoint linkage was similar under an unrealistic best case scenario; however, when four data imperfections were combined, the performance of single point linkage analysis appeared to be superior to multipoint. The absence of parental genotypes in the presence of 1% genotype error led to marked degradation of linkage signal, particularly for multipoint analyses.
Sullivan
Patrick F
PF
Departments of Genetics and Psychiatry, University of North Carolina at Chapel Hill, North Carolina 27599-7264, USA. pfsulliv@med.unc.edu
Neale
Benjamin M
BM
Neale
Michael C
MC
van den Oord
Edwin
E
Kendler
Kenneth S
KS
D003198:Computer Simulation; D003627:Data Interpretation, Statistical; D008040:Genetic Linkage; D008126:Lod Score; D018709:Statistics, Nonparametric