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For the lower surface of the sample, we constrain all displacements, u x = u y = u z = 0. Regarding the free upper surface of the sample, we consider the electrochemical potential of water and ions identical to those measured in the external bath, ε w = ε w *; ε+ = ε+*; ε− = ε−*.
While our strand bias test could not improve ShoRAH's raw SNV calls for the HIV sample, we consider the slight reduction in recall with σ = 0.0111 (two additional very low frequency true SNVs were classified as errors) to be an acceptable cost, compared to the potential benefits of the test.
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In view of the low estimates of heritability found in this sample, we considered the sample size to be too small to attempt a partitioning into training and validation datasets.
To calculate the probability sample, we considered the situation of higher probability of sampling error (p =0.50) assuming a confidence level of 95% and a sampling error of 5%.
By combining single probe data across multiple samples, we consider the entire population of probe expression values (gene values) as derived from a single distribution.
In comparing the suitability of different submodels estimated by Gibbs sampling, we consider the popular deviance information criterion (DIC) (Spiegelhalter et al. 2002), defined as 2 × ℓ (E ^ ; y ) − 4 × E ^ (ℓ (θ ; y ) ), where θ collects all parameters, ℓ(·| y) is the log-likelihood, and E ^ is the mean over all T iterations.
For double FIT sampling, we considered the FIT positive when the cut-off level exceeded 50 ng/ml in at least one out of two samples.
For comparison with gene expression measured in whole-tissue samples, we considered the set of probes that were present on the two array chips.
To identify minimal-size genesets capable of optimally discriminating between malignant and normal samples, we considered the expression values for the set of 318 genes in these 84 samples.
Although the Asn29His variant was associated with the disease in our sample, we consider SPTBN1 the more likely candidate in this region.
However, the size of the sample we considered may have affected the West African results at both regional and national levels.
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