Exact(22)
To adjust for multiple comparisons, a stringent P value of <0.001 was used for post hoc comparisons.
An expanded list (less stringent P and fold-difference criteria) would show the same thing.
A P value of <0.05 was considered statistically significant; for multiple combinations (n = 10) of pairwise comparisons, a more stringent P value of <0.005 was used.
To help minimise this, we used a stringent p value of ≤0.01 to denote statistical significance throughout the statistical analyses.
Owing to multiple outcomes, we regarded a more stringent P value of ≤0.01 as statistically significant for the main analyses.
ANOVA analyses with stringent p values retained 83 of these genes as highly significantly regulated (Table 1; additional file 1).
Similar(38)
Figure 3 shows that when more stringent p-value thresholds are used to define GWAS hits, the Bayes Factors increase.
At a less stringent p-value, 1147 differentially-regulated probes (341 up and 806 down) were identified (p<0.05, FDR = 5%) (Table S2).
Subsequent analysis of the identified Hox-clusters using more stringent P-value cut-offs improved the resolution for some of the clusters.
Multiplicity of testing was adjusted using either the false discovery rate (FDR) [31], pFDR, or a stringent p-value threshold in various stages of analyses.
Allowing ambiguities obviously increases the size of the search space and very relaxed ambiguous searches may need to use a more stringent p-value accordingly.
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