Sentence examples for available imputation from inspiring English sources
In a large German population for which 1st generation GWAS was also available, imputation was provided based on Illumina Sentrix HumanHap300 BeadChip data and compared to re-genotyping of candidate gene SNPs by MALDI-TOF and TaqMan® techniques.
KW reviewed available imputation algorithms and suggested experimental designs.
Basic segregation rules appeared to be the best currently available imputation method for ungenotyped individuals.
Because no physical map of the reed canarygrass genome was available, imputation was conducted using classification trees.
Among all the available imputation methods for missing values, the one that is more broadly used in the microarray field is the kNN-Impute [ 25].
To assess the efficiency of the two methods described above, imputation of Dam genotypes was also performed using two currently available imputation programs: findhap.f90 Version 2 [ 15] and AlphaImpute Beta 1.16 [ 29].
rs12144309 was tested for association with RA in the WTCCC dataset by use of the publically-available imputation data, and by genotyping across the NZ and UK (London) sample sets (Table 2).
Importantly, if a (completely typed) reference panel H is available for imputation, then one can base imputations of X mis on H only, i.e., p (X ^ mis | X obs, H ) becomes p (X ^ mis | H ). In such settings, when imputing a given variable k, there would be no uncertainty about values at the predictors to account for (supposedly, genotypes or haplotypes in H have been perfectly called).
Here, given the amount of missing data (78% on average) and the information available for imputation (no reference panel and no genetic map of markers), imputation uncertainty was too prohibitive for detecting novel significant markers when performing imputation-based association tests.
After quality control, 328 077 SNPs were available for imputation.
As information from three studies was available, multiple imputation could be used to handle missing data.
