Geometric mean values, range and standard error of expression are shown in Additional file 1: Table S3.
This assumption accounts for the fact that the experimental error of expression values inflates at small expression levels in logarithmic scale [ 41- 43].
It can be easily seen that the incorporation of operon information leads to a better estimate, with a smaller mean squared error, of expression levels.
The more general version of this parameter, Global Normalized Uncalled Standard Error (GNUSE), compares the standard error of expression estimation with the values stored in precomputed frozen parameter vectors obtained on the basis of analysis of many arrays of the same type together (McCall et al., 2011).
PLM computes standard errors of all expression measures, and these are standardized, gene by gene, across arrays, so that the median standard error across arrays is 1.
ProtQuant is highly conservative method which is based on sum of Xcorr method itself increases the specificity of spectral counting and reduce the type I errors of differential expression.
Let Δ be an absolute error of b (expressed as (1) or (2)) and a is a model value for the same expression, then it can be verified if: (8) " a belongs within b ± Δ " The error Δ of expression value (1) or (2) is then estimated trivially [ 32] by using one of two common empirical relations.
Computation of standard errors for expression indexes allows calculating confidence intervals for fold changes [77], [78].
Computation of standard errors for expression indexes allows calculating confidence intervals for fold changes (33,34).
The standard error of measured expression for variant repeats was generally <20% of the mean.
