However, there were 133 SNPs that gave stronger evidence based on imputed genotypes (all with imputation r > 0.90); an intronic single-base deletion in AKAP9 (chr7:91681597), located 51 kb from rs6964587, was the best imputed hit (P = 4.4 × 10−7, compared with 1.7 × 10−6 for rs6964587 in the same dataset).
All these observations based on imputed values have been removed in our sample.
Reliability of GEBV based on imputed genotypes was 1.2% lower than the reliability of GEBV based on real genotypes.
Reliability of GEBV based on imputed genotypes was 2.1% lower than the reliability of GEBV based on real genotypes, averaged across 10 traits.
Additionally, any analysis based on imputed values (rather than direct estimation of a parameter of interest) would benefit from a multiple imputation procedure.
> -wrap-foot> Based on imputed and weighted analyses OA osteoarthritis Among clinic attenders, 149 individual feet were diagnosed with symptomatic midfoot OA.
As a benchmark to evaluate the accuracy of genomic selection based on imputed GBS-like data sets, we used the accuracy of prediction realized with a GBLUP approach based on a kinship matrix estimated with original 90 k SNP marker data or the non-imputed marker data.
This system is based on grading structure from grade "A" (lowest) to grade "I" (highest).
In a second step, missing data will be imputed using multiple imputation techniques; based on this imputed dataset, we will conduct a sensitivity analysis (all case analysis).
Lastly, with one goal of sequencing to be to detect rare variants, we compared, for the three races, the relationship between the estimated MAF, based on the imputed dosage, after imputation and the quality of imputation (Figure 5).
