Sentence examples for using the pairwise tagging from inspiring English sources

Coverage which indicates the fraction of common HapMap markers successfully tagged by the set of genotyped SNPs was estimated using the pairwise tagging method in Haploview[48], which is based on the Tagger algorithm (www.broad.mit.edu/mpg/tagger/).edu/mpg/tagger/

We selected tagging single nucleotide polymorphisms (SNPs) with the criteria of R>0.8 and minor allele frequency (MAF)>0.05 across the region of the MTNR1B gene (include 3kb upstream and 3kb downstream of the gene) from the HapMap Phase II, using the pairwise tagging model.

For the SNP selection we used the pairwise tagging approach implemented in the Tagger software [21], including all SNPs with a frequency of more than 1% and using a threshold of 0.8 as the cut-off for two SNPs being tagged by each other.

Selection was undertaken using the pairwise-tagging option with an r2 of 0.8 and minor allele frequency greater than 10%.

The cases and controls were genotyped for 12 of the 30 exploratory set of SNPs, which were chosen using a pairwise tagging approach [31] to remove the redundancy among the genotyped markers, given the high level of LD between them.

The pairwise tagging algorithm was used with an r of 0.80 in the CEU and CHB + JPT populations separately, and then redundant SNPs were removed.

We implemented the pairwise tagging method with an r2 threshold of 0.8 and minor allele frequency (MAF) of 0.1.

Four tag-SNPs were chosen with the pairwise tagging algorithm implemented in the Tagger program of Haploview: rs7548659, rs12711521, rs2273346 and rs2261695 (r2 threshold was 0.8).

To simplify the procedure, we only used the pairwise aggressive algorithm and two LD thresholds (r2≥0.8 and r2≥0.5) to capture tagged SNPs in CEU.

With position estimates computed using MDS, which jointly uses the pairwise distance estimates, we can compute new pairwise distance estimates.

This uses the pairwise maximum likelihood estimation procedure.