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The use of a single solvent system and tissue extraction method for all platforms in any given study reduces the complexity of statistical integration of the data from the different analytical platforms, since the variability resulting from differences in extraction efficiency between platform-optimized solvents or sample extraction methods is removed.
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The rest of covariates and interactions in all these models (see Methods) were removed as non-significant terms.
Jackknife analysis of these results shows little systematic change when any one or two methods are removed from the analysis (Figure S3).
In the first, MCL gene clusters showing evidence for recombination for all four methods were removed.
All problematic sequences identified using these methods were removed from the dataset.
All other of the investigated factors (see methods) were removed from the regression model as not significant.
In the second, gene clusters showing evidence for recombination for at least three of the four methods were removed.
Unfortunately, the latter two methods are removed from natural environment variation, and therefore may miss heritable expression that requires certain environmental conditions to manifest.
The criteria of articles excluded from the study were: (1) The papers of inappropriate statistically description or methods were removed; (2) Studies in which IL28B genotypes/alleles were not well defined.
These items were assessed by the group of experts, and those items that did not meet the criteria mentioned in the "Item Selection" section of "Material and Methods" were removed.
To minimize the influence of ambiguous mapping, siRNA loci containing paternal reads in un-pollinated 0-DAP kernels or with low expression level (Materials and Methods) were removed, and 39,126 siRNA loci were retained for further analysis.
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