One of the most stringent guideline values (Table 1) is for mercury in aquacultural water, which is 0.026 μg/L (CCME 2007).
Even at the most stringent significance values used in Table 2, approximately 10% of total signatures show differential regulation.
Core promoter predictions for transcripts associated with protein-coding genes in microsynteny blocks were performed with McPromoter using the most stringent parameter values (Ohler 2006).
The SAM classifier uses the most stringent E-value threshold, E = 0.05.
As clearly documented in the work of Kim et al., we used the most stringent EPP value as our study was focused on "strict divergent gene analysis parameter" [ 65].
The number of orthologous unigenes per CAR was slightly reduced in eight CARs for the most stringent e-value cutoff, but the size of CARs was maintained with the exception of two CARs that were reduced by 20.1 and 48.1 cM, respectively (table 3).
Additionally, we performed a functional annotation of these genes, and the most stringent annotations (p-value <0.01) were homeobox, transcriptional repressors and activators, neuronal differentiation and segmentation.
Ten QTL regions were identified at the most stringent threshold (P-value < 5.10-6), i.e. five for carcass traits, five for meat quality traits and none for growth rate, feed intake and feed efficiency.
For the majority of parameters the concentrations are most conservative for aquaculture (i.e. most stringent; generally, the lowest concentration values) with the least conservative values for livestock (Tables 1, 2).
This preliminary scan of the four datasets finds: 1) For most partition sizes s, small (stringent) values of t fail to detect any gene sets at all, while large t settings yield a single set composed of most, if not all of the genes.
