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For calculation of amplification efficiency of the PCR products Applied Biosystems System software was used.
The comparative threshold cycle (CT) method was used for the calculation of amplification fold as specified by the manufacturer.
The thermal cycling conditions were the following: 10 min at 95°C, 40 cycles of denaturation at 95°C for 15 sec and annealing-extension at 60°C for 1 min. The comparative threshold cycle (CT) method was used for the calculation of amplification fold as specified by the manufacturer.
Amplification steps were as follows: 10 min denaturation at 95°C, 40 cycles of denaturation at 95°C for 15 s and annealing extension at 60°C for 1 min. The comparative threshold cycle (CT) method was used for the calculation of amplification as specified by the manufacturer.
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Relative quantification of the target genes of interest was carried out using the qBase 1.3.5 software (Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium) [ 64], which takes into account the calculations of amplification efficiencies and multiple housekeeping genes.
Relative quantification of the target genes of interest was carried out using the qBase 1.3.5 software (Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium), which takes into account the calculations of amplification efficiencies and multiple reference genes.
Relative transcription levels were calculated as x = 2-ΔΔCT, was used for the calculation of fold amplification [ 24].
The calculation of primer amplification efficiency and Ct determination were done using the miner algorithm [ 26].
A number of analytical methods have been described for the calculation of the amplification efficiency of a reaction from single reaction kinetics [ 38] (for a correction in equation 3 of this paper see: [ 39]), [ 40- 42].
Two specific target amplifications (STA) were performed on the 36 cDNA samples (31 LCM-derived aRNA samples, 3 multi-tissue aRNA samples, a calibrator sample (pool of all the LCM-derived aRNA samples) and a pool of cDNA from total fetal ovary RNA (for the calculation of PCR amplification efficiency) in 96-well PCR plates.
The most common method for the calculation of the amplification efficiency of a QPCR reaction requires preparation of a series of serial dilutions of the sample and creation of a standard curve, whereby efficiency is estimated from the slope of the standard curve [ 36, 37].
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