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The amplification efficiency was tested for each primer pairs using a dilution curve method over a 6 point dilution series (from 0.1 to 0.002) on a pool of cDNAs containing all genotypes and developmental stages.
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Basically, our well-based RPPA does not require the use of a printer arrayer, nor does it use scoring a dilution curve.
Linearity was verified by generating a standard curve using a dilution series of the indicated sample.
To additionally ensure that the quantified western blot signal is within the linear range of detection, we generated standard curves using a dilution series of the respective ubiquitination reaction, which was incubated for 180 min at 30 °C.
Quantification was carried out using a standard curve generated using a dilution series of fully methylated with unmethylated DNA (Applied Biosystems).
In addition, high PCR efficiency (96 103%) was confirmed for each primer pair by standard curve assays using a dilution series of cloned cDNA fragments of Ty3/gypsy, Ty1/copia, Actin, and UBC (5.0, 1.0.04.2, 0.008 0.008, and 0.0016 ng/ml).
The standard curve was constructed using a dilution series of purified H2A.Z-1 or H2A.Z-2 amplicon.
Dose response curves were generated using a dilution series for ammonium tetrathiomolybdate (ATTM) and 2-methoxyestradiol 2ME2). 2-methoxyestradiol 2ME2
The number of plasmid copies per µg genomic DNA was determined using a standard dilution curve of the plasmid in genomic murine DNA.
Primer efficiency was assayed for all pairs using a standard dilution curve, and relative expression levels were calculated using the method suggested in [ 13].
The quantitative Taqman assay was able to detect a minimum of ~10 copies of JC virus per PCR reaction as determined using a standard dilution curve.
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