Sentence examples for between the reference panel from inspiring English sources

We conditioned imputation on the maximum-likelihood estimates of the crossover map, which specifies the likely locations of haplotype transitions, and the error rate map, which specifies unusual markers based on a combination of discrepancies between the reference panel and study sample data, genotyping error, and recurrent mutation.

Differences in population structure between the reference panel and target dataset can be a source of imputation inaccuracy.

Both methods make use of the same underlying model of LD between variants in the reference panel, and are effectively indistinguishable in terms of accuracy and run-time.

Pathology reference panel reviews in multicentre studies are useful for checking eligibility when there is a high level of disagreement on the eligibility criterion between local pathologists and the reference panel members, but good agreement between members of the panel.

The accuracy of marker imputation depended strongly on the linkage disequilibrium between the markers in the reference panel and the markers to be imputed.

In accordance with previous findings [ 5, 8], we observed that imputation accuracy strongly depended on LD between the markers in the reference panel and the markers to be imputed.

If the phased and unphased HapMap 3 datasets were used for the reference panel, between 23.0% and 25.1% of the common SNPs and between 54.0% and 56.7% of the low frequency SNPs were untaggable.

Finally, the simulated gene statistics were compared to the original gene statistics, and adjusted P-values for both gene statistics were generated as described in Equations 2 and 3. Here, we would like to note, that both the gene statistics were computed based on the SNPs shared between the GWAS platforms and the reference panel.

For predicting untyped genotypes, imputation uses estimated haplotype segments from the reference panel for the overlapping variants between reference and genotype panels.

A drawback of standard imputation is that it, in principal, requires access to an appropriate reference sample; results can be highly sensitive to the reference panel used (as seen from the disparity between our imputation results around the MalariaGEN causal SNP, rs334, using 1000 Genomes as a reference panel, compared to those obtained by Band et al. [ 2013] using HapMap3 as a reference panel).

Imputation programs leverage the LD between variants to populate the more sparsely genotyped data set with variants from the reference panel.