Sentence examples for low density panel from inspiring English sources

The F2 animals genotyped with the 9K low density panel were imputed to 60K with imputation accuracy of approximately 0.99, as previously described (Gualdron Duarte et al. 2013).

The accuracy of imputation depends on several factors, such as the number of SNPs in the low density panel, their informativeness and distribution across the genome, the relationship between the animals genotyped, the effective population size, and the method used.

Properties of low density panel SNPs for ECA1 selected using three methods (tables for all chromosomes are in Additional file 6: Table S3); total number of SNPs that would be on a genome-wide LDP of equivalent density.

Obviously, if a low density panel of SNP was also available for these Dams, the average success rate would be even greater, but at the cost of genotyping the Dams for the low density chip.

Meuwissen and Goddard [ 18] applied a method for imputing whole-sequence genotypes on individuals genotyped at a low density panel and reported that 10% of the missing genotypes were erroneously imputed.

In contrast, allele frequency impacted imputation accuracy only marginally if the low density panel contained markers that exhibited at least moderate levels of LD (r > 0.5) with the imputed markers in the high density panel (Additional file 3: Figure S3).

In addition, results indicate that a more cost efficient implementation of marker assisted selection using low density panels with genotype imputation, would be feasible for these breeds.

However, the accuracy of GEBV predicted by low density panels can be increased through the use of genotype imputation [ 32], where high density genotypes are imputed using low density SNP genotypes and a high density reference panel of haplotypes [ 24].

Currently no low density panels for SNP genotyping are publicly available for swine, but the presented results will be available to aid in the development of efficient SNP platforms.

However, the advantage of using a high-density panel for GS compared to a low-density panel depends on which markers are included in the low-density panel.

Inferring high-density genotypes from a low-density panel is known as imputation [ 3].