Under higher stringency conditions (a lower buffer concentration, in this case, 0.5 × SSC), the reduced level of hybridization can be observed for both targets, but for the less complementary oligonucleotides, it was somewhat much stronger (Fig. 2b).
The transformants were marked and transferred to higher stringency plates as described earlier.
As a consequence, association studies can be performed with higher stringency.
For the gene families with paralogs, additional BLASTCLUST procedures with higher stringency were implemented to discover the true orthologs.
The colonies were marked and selected on higher stringency plates as described earlier and are shown in Figure 8A.
For higher stringency, washings were repeated twice with lysis buffer containing 20 mM imidazole and once with lysis buffer containing 50 mM imidazole.
Clustering of ESTs performed by the EST2uni-pipeline [30] resulted in a slightly smaller number of ESTs passing quality due to the higher stringency of the set parameters (Table 4).
The oligos designed for the Infinium assays may have a higher stringency than the short reads from sequencing, resulting in a locus specific assay for one of the paralogous regions that does not display population polymorphism.
While both the MAD homology domains (MH1 and MH2) of Smad3 interacted with Sox17 at low stringency binding conditions (data not shown), Smad3 1–145 did not bind to Sox17 under higher stringency conditions (Fig. 7B).
Third, associations between publications and gene communities can be calculated with higher stringency using the edge-swapping null-model in conjunction with bi-binomial P-values as compared to binomial or hypergeometric statistics.
If the expected number of co-occurrences is larger, an observed number of co-occurrences in a real bipartite graph will be less significant and thus such a null-model permits co-occurrence analysis with higher stringency.
