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Using two negative loci on scaffold 1 (scandold_1:6458583-6458633) and scaffold 919 (scaffold_919:126357-126407) to determine the genomic background, 16 out of 17 regions were enriched more than 2.5-fold (Figure S2, FDR <0.06).
Kernel smoothing suggested that Omy12 contained a peak of negative loci with Omy8 and Omy23 smaller peaks.
LOH positive loci may have CN loss (CN ≤ 1), be CN neutral (CNNLOH, CN = 2) or show CN gain (CN ≥ 3); Likewise, LOH negative loci may show CN loss, gain, or neutrality.
First, power was estimated under each epistasis model as the number of times the algorithm correctly identified both functional loci out of each set of 100 datasets, without any false positive or false negative loci.
Moreover, part of false negative loci occurred in first five positions corresponding to enzyme recognition site because all of these candidate SNPs located in recognition site would be missed by RE digestion-based methods.
Most of the qPCR and aCGH results were concordant based on the detection in the same sample (except chr8: 27562722–27579422 and chr9: 19750362–19757329 loci, which were regarded as false positive and false negative loci).
Similar(53)
Also, to avoid potential confusion, the following data analyses only include case results having a positive total information value when all the (positive and negative) locus log LR) values are added together.
Of 473 NGS reads covering the false-negative locus, 9.5% supported the correct heterozygous A/C genotype call, with Sanger sequencing showing low peak height for the alternate A allele.
ChIP enrichment was assessed using quantitative PCR and standard curves to measure copy number of the locus of interest and two negative control loci.
Because γ1 can be either a positive or negative value, loci with negative values of γ1 and loci with positive values of γ1 were considered separately.
Several positive and negative control loci were used for confirmation of IP efficiency before hybridising to microarrays (Supplementary Figure 1A).
Related(20)
negative facilities
deleterious loci
negative premises
negative spaces
negative settings
poor loci
opposite loci
negative spots
negative sites
negative standing
negative place
negative rise
negative terrain
negative axle
negative layout
negative words
negative implications
negative signs
negative virtues
negative consequences
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