It targets higher-than-average companies in each rating grade of the incumbent's rating scale and employs more stringent rating standards.
We note that using a genotyping completion rate of 95% or more allows some SNPs of poor genotyping quality to enter the analysis; the alternative is to use a more stringent completion rate, such as 99%, which has the advantage of removing low-quality SNPs at the cost of removing some high-quality SNPs.
Interestingly a large proportion of genes involved in lipid metabolism, such as PPRγ, ACAT1, SCARB1 [45], FABP5 [46], FOXC2 [47] were only found to be differentially expressed with a more stringent EV occurrence rate and would not have been detected by the approach where mean EV was calculated for all the 6 donors.
Because the two very strong gene regulators, 2,4DNT and 2,6DNT have over 2000 genes that were affected, in order to identify most significantly regulated genes, a more stringent false discovery rate (FDR) with adjusted p-value less than 0.002 was applied resulting in 1418 and 1241 significantly differentially expressed transcripts for 2,4DNT and 2,6DNT, respectively.
Applying a more stringent false discovery rate test only locus #2 was significant.
Even with a more stringent false positive rate (2%), a significant fraction (228 out of 350 residues, ∼65%) is predicted to be disordered.
These results indicate that although the vast majority of SNPs could be robustly scored with high call rate, a more stringent in silico selection on the flanking sequences yields more SNPs with higher call rates and GeneTrain scores as well as SNPs with average higher GeneCall50 scores.
With a more stringent significance threshold (false discovery rate q<0.05), 67 genes met criteria for differential expression.
Despite the substantial de-noising achieved through our local adaptive SVD, the very low off-target coverage combined with the high RD variability informs a more stringent prior on the transition rate than previously used for WGS.
A trade-off means that the parasite cannot increase β without incurring increasing death rates, although a more stringent criterion on the trade-off, such as the concavity used here, is required to select intermediate levels of virulence (Sasaki and Iwasa 1991).
