For the TLDA and LNA arrays, the CVs were computed based on the replicates of each control/probe in a single array, while in the beads array, the CVs were computed based on the intensities after intra-sample normalization for the four normalization beads from the five pools for each sample.
Based on the replicate data, we also report the 95% confidence interval for each plot -- the shaded blue region.
Thus the LOESS curve indicates the average / estimated standard deviation associated with any given mean intensity, based on the replicate data set of ~180 000 sets of five replicates.
Based on the replicate measurements in the genomic DNA of the 'Chinese Spring' lines, differences as small as 3.3% are detectable with this pyrosequencing assay (LSD = 3.3% ± 0.0 at F test, p < 0.001; general ANOVA in Genstat) (Table 2).
Based on the replicate measurements in two 'Baldus' genotypes (Table 3), differences as small as 5.9% are detectable in cDNA samples with this pyrosequencing assay (LSD = 5.90% ± 0.02 at F test, p < 0.001; general ANOVA in Genstat).
Additionally, the GeneSpring Global Error Model, based on the replicate measurement samples of all genes on the microarray was used to estimate differences between medians, the standard errors among the different clones, and the extreme tails of the distribution of differences.
Thirty-seven differences of 4386 phenotypic comparisons were observed based on the 17 replicated individuals, thus the error rate is 0.84%.
The scheme is based on the concept of "replicated elusive service", which through server roaming, causes the service to physically migrate from one physical location to another.
Classification based on the TaqMan® data replicated the microarray results and achieved 80% classification accuracy on the testing set.
SEM values are based on the 6 replicate populations in each treatment group, except for the mal group which had only 5 surviving replicates.
