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Relative expression was calculated between B. rapa and B. oleracea or between the reference sample (1 to 1 parent mix) and the six allopolyploid samples using PROC MIXED in SAS Version 9.1: This analysis assumed equal primer efficiencies and used Tubulin CT values to calculate baseline corrected CT values for each gene of interest [45].
We used it for calculating the distribution of the Pearson correlation coefficient between the reference sample concentrations and the 1000 cell sample concentrations for each gene (Fig. 2a).
Only one marker in a potential CNV which was detected in only one animal failed validation by showing no difference between the reference sample.
Relative quantification (RQ) values were expressed using the formula: (2Ctr − Ctt) where Ctr − Ctt represents the difference between delta Ct between the reference sample (untreated control) and tested samples (resveratrol treatment).
Additionally, we found that the level of correlation coefficient for the CNVs validation is highly dependent on the copy number differences of CNV intervals between the reference sample and the test sample, i.e., the less difference of copy number, the lower the calculation of correlation coefficient.
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Comparisons were made between the reference samples at times T8 and T12, T16, T24, respectively.
Model 3: within experiment effects only: For the case where the data is not adjusted for between-experiment batch effects, the reference sample is not used and so there are only two coefficients in the vector β g.
The Ct value of each test chicken was normalized to the reference gene first, then the ΔCt value was calculated between the test sample and the reference sample (RJF).
We first, determined the average correlation coefficient of the reference sample signal between all pairs of hybridizations within PT or PP experiments.
The results of both experiments were compared with respect to the log2 ratio between each time point analyzed and the reference sample at 0 h (Table 3).
Four hybridizations, including the dye-swap experiment, were carried out between the target and the reference samples.
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between the reference standard
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between the reference plane
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