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Weighted average was applied to replicate measures.
The specimen current records of Fig. 4A were recorded from a cell where 100 μM TBQ was applied to replicate the effect observed in the experiment of Fig. 3. Again, TBQ decreased the inward current and increased the outward.
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It demonstrates that such coarse grained particle model can be applied to replicate the dynamics of viscous blood flow, with the advantage of bridging the gap between macroscopic flow scales and the cellular scales characterizing blood flow that continuum based models fail to handle adequately.
A stepwise procedure, using thresholds of p=0.05 for variable selection and elimination, was applied to each replicated sample, and only the risk factors selected in at least 50% of the procedures were included in the conditional logistic regression models as confounders.
The MIDAS in-slide replicate analysis was applied to merge replicates of each gene.
Each treatment was applied to three replicate 0.5 ha treatment plots using a randomised complete block design.
The template produced in Figure 5A was applied to three replicate samples each of unstimulated and influenza-stimulated cells.
Data preprocessing included two normalization processes: quantile normalization [ 31] was applied to technical replicates and then Loess normalization applied to all microarrays to standardize the dynamic range of expression levels.
The ComBat algorithm was used to minimize assay batch effects on per chip median normalized scores [ 22]. Background subtraction based on empty features was applied to all replicates in a comparison as needed.
A pooled correlation method was applied to within-array replicate spots, a linear model was fit to the data, and empirical Bayes-based statistical analysis of differential expression was performed (employing Benjamini & Hochberg multiple testing correction) using the limma package from Bioconductor [83], [84], [85].
The HMM was applied to each biological replicate, and only genes with reproducible results were used.
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