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As a result of the low count in some cells, a Monte Carlo p-value, based on 1000 replications was calculated for each species to test whether the observed count significantly deviated from what was expected by chance.
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The counts significantly deviate from the expected uniform distribution (Kolmogorov-Smirnov test, Z = 2.7, P < 0.0005) and show that authors tend to round more frequently, inconsistently and sometimes wrongly, when the last digit is high (as expected for psychological reasons) and when it is 4, 6 or 9.
We also studied the relationship within tumor samples and a majority of genes (1474 of 2340, 63%) showed a positive correlation between the intron retention count and expression level, which is significantly deviated from the null expectation (50%, P-value < 2.2 × 10−16, binomial test) and is consistent with previous observation [ 35].
Haplotype sharing was significantly deviated in the affected sibs (p=0.01).
Additionally, methylation patterns at eight genes significantly deviated from neutrality, with similar trends of hypermethylation in purebred dogs.
Sensitivity analysis excluding studies whose genotype frequencies in controls significantly deviated from Hardy-Weinberg equilibrium was performed.
Sensitivity analysis excluding studies whose genotype frequencies in controls significantly deviated from Hardy-Weinberg Equilibrium (HWE) was performed.
No SNPs in this study significantly deviated from HWE.
Conventionally SNPs that are significantly deviated from HWE are discarded before further analysis.
In addition, most environmental layers by taxa and by platform significantly deviated from unimodality (p<0.001).
Shandong and HHS groups significantly deviated from neutrality.
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