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Naturally, the genes indirectly affected by a mutation are unknown, but can be inferred by statistical means if there are sufficient data available.
Fourth, using the list of candidate heat-inducible genes and the high-confidence TF-gene regulatory matrix, heat-responsive TF sets can be inferred by statistical methods.
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It is plausible that the degree of coordinated gene co-regulation by pairs of TFs, miRNAs or TF-miRNA regulators can be inferred by utilizing statistical association (interaction) measures for quantifying the significance and size of the overlap between the sets of predicted targets of each pair of regulators.
For the problem that the sample capacity n from a certain distribution is known but the overall distribution is unknown, its overall statistical distribution can be inferred by the bootstrap method [19].
For R. amplexicaudatus, synchrony and seasonality could be inferred by visual analysis of the data, even without formal statistical analysis (Fig. 1).
Differentially expressed genes were inferred by univariate statistical analysis.
Statistical significance in ANOVA was inferred by Q-statistics to minimize false positives; a Q-value of 0.05 was used as a cut-off.
Haplotypes were inferred by a Bayesian statistical method with the PHASE 2.1 software [ 35] using the default parameter set with 1,000 iterations.
To assess the power of the experiments to detect smaller differences in gene expression, the gene expression level at which there was a 50% empirical probability of a significant call (GEL50) was inferred by logistic regression of statistical significance against fold-change as in Townsend [ 27].
Statistical significance was inferred by p < 0.05.
The significance of comparison among diversity indexes were accessed by a two sample z-test for comparison between means [ 78]. fru C3 exon and I3 intron haplotype networks were inferred by TCS v 1.21 software [ 79] using statistical parsimony with a 95% connection significance [ 80], and was manually converted to Newick tree format for some of the neutrality tests.
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