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Note that LASSO estimates of non-zero coefficients are the least biased and most efficient, with smallest MSE among all methods as displayed in Additional file 2: Table S6.
We also considered additional measures, including false positive rate (FPR), true positive rate (TPR), and mean squared error (MSE) for the coefficients corresponding to truly null and truly associated predictors, to help evaluate the performances of competing statistical methods as displayed in Additional file 2: Table S6.
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It should be emphasized that since PRANK's goal is not to discover any new pockets, the maximum achievable success rate is upper bounded by the total coverage of the native prediction method as displayed in the All column.
Four general trends in the data could be visualized by this method, as displayed in Figure 4.
These methods include phage display (Bratkovič, 2009) or other display-based methods, as well as technologies utilizing peptide microarrays (Halperin et al., 2010; Legutki et al., 2010; Stiffler et al., 2007).
As displayed in Figure 1, noBg_cubicSpline outperforms all other BeadStudio normalization methods.
The supplementary materials display additional methods descriptions such as meteorological data and sampling methods as well as detailed results on average evenness.
Networks can be inferred using a combination of experimental and computational methods and displayed as a repertoire of connections (the cell's network repertoire), different subsets of which are selected by particular environments.
Embryos treated with 2 4 μM chelerythrine from the mesenchyme blastula stage on (see Methods) displayed gastrulation defects as well as extensive apoptosis as indicated by TUNEL and elevated levels of activated caspase-3.
Immobilized lipase membrane prepared as described in the Methods section displayed good long-term stability.
A meta-analysis combining the p-values from these studies was analyzed by Fisher's method and displayed as bar graphs in Figure 8A.
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