3) Regarding the bioinformatics, consensus sequences (five regularly spaced hydrophobic residues) are not a very stringent search pattern.
Therefore, if past dietary choices were guided by over-restriction, similar stringent eating patterns may continue after diagnosis.
Further, stringent mating patterns have led to the existence of several endogamous populations, which makes it an important resource for mapping genes (3).
This could be explained by the differential nature (feature) of the MHC-I cleft, which presents closed extremities, forcing in a more explicit manner the epitopes to adopt more stringent structural patterns.
Furthermore, we included the DNA from four healthy donors as the most stringent control for the pattern of promoter CpG island methylation in normal liver tissues.
Homologues were searched for query sequence patterns, using stringent PSI-BLAST criteria (maximum 10 iterations, 10 -10 E-value), in NR-Db.
The COVE analysis is much more stringent than the first pattern-based step and we expect very few false positives among the high-scoring hits from this analysis.
Minor query 1: It is difficult to obtain patterns qualifying stringent cut-offs followed (please refer to Methods section) when the sequence identity is reduced to 40% that will be applicable for all the superfamilies.
Yet another potentially influential factor is the relatively small difference in gene expression between control and ethanol-treated animals, which may make it more difficult to detect significantly different patterns at stringent levels of statistical significance.
The stringent conservation of exon patterns across vertebrates strongly supports the presence of the 15-nt (5-aa) alternative splices within this exon which likely will have important functional implications.
Use of patterns makes the initial pattern-hit initiation stringent, thus elevating the specificity of the search.
