Sentence examples for tagging threshold from inspiring English sources

Based on the analysis of tagging threshold of r2 of SNPs in each bin, one htSNP was selected from each bin for genotyping.

Specifically, Tagger implemented in Haploview using HapMap Caucasian data was used to develop the tagging scheme across each gene including 10 kb upstream and downstream of each gene with r 2 of 0.85 as the tagging threshold.

The MACS program [23] and locally developed software (TRLocator) were used to identify qualified peak regions in both experimental data and input DNA data with a consolidating window size of 100 bp, p-value<0.05, log2-ratio of enrichment between experimental data and control data > = 1.0, and a minimum tag threshold per peak of 40.

The fraction of sites undetected using unique tags alone are influenced by the tag threshold used.

A 5% liver TAG threshold is used for the diagnosis of fatty liver in cats [ 26].

With our data, the lowest tag threshold meeting these criteria was 6 (enrichment factor 5.3 and motif occurrence frequency 17.8%, see Figure  1B).

To define expressed RTSS, we used a mapped tag threshold of 5 for the cell lines GM12878, HeLaS3 and HepG2 and 3 for K562.

For the four libraries with 35 bp tags and the four libraries with 20 bp tags, our algorithm shows the highest recall over all conditions (six-tag threshold shown in Figs. 3C and 4 and eight-tag thresholds shown in Supplementary Fig. S1 and numbers of sites shown in Supplementary Table S3).

With the highest tag threshold applied (8 tags), nearly 40% of the resulting peaks contain an NFI binding motif near the center position, which is comparable to what was commonly observed in other ChIP-Seq experiments.

Of the 4,794 binding sites identified with a tag threshold of 428 occurred within 5 kb upstream of genes, 106 in protein coding exons, and 232 within 5 kb downstream of genes (see Additional file 2: Table S2).

Applying the same procedure to 4,794 200bp-long sequences centered on the ChIP-seq peaks obtained with a tag threshold of 6, we obtained the logo shown in Figure  1F.