From: Assessment of alternative genotyping strategies to maximize imputation accuracy at minimal cost
Scenario | 1Genotyping strategy | 2Imputation accuracy: R-squared | |||||||
---|---|---|---|---|---|---|---|---|---|
Other | Grandparents | Parents | Testing individuals | ||||||
MGS + PGS | MGD + PGD | Sire | Dam | ||||||
n = 2436 | n = 63 | n = 86 | n = 41 | n = 73 | n = 98 | L6k | L3k | L384 | |
s1 | H | H | H | H | H | L | .996 | .990 | .967 |
s2 | H | H | H | H | L | L | .991 | .990 | .952 |
s3 | H | H | H | L | L | L | .989 | .984 | .941 |
s4 | H | H | L | H | L | L | .991 | .985 | .935 |
s5 | H | H | 0 | H | 0 | L | .981 | .968 | .888 |
s6 | H | H | H | 0 | 0 | L | .984 | .974 | .910 |
s7 | 0 | 0 | 0 | H | H | L | .958 | .937 | .870 |
s8 | 0 | 0 | 0 | H | L | L | .841 | .808 | .728 |
s9 | 0 | 0 | 0 | H | 0 | L | .850 | .794 | .719 |
s10 | 0 | H | H | H | 0 | L | .988 | .977 | .910 |
s11 | H | L | L | L | L | L | .975 | .964 | .888 |
s12 | H | 0 | 0 | 0 | 0 | L | .953 | .931 | .817 |