guescini2 {qpcR} | R Documentation |
A high quality experiment in which a decreasing amount of PCR mix mimics PCR inhibition.
data(guescini2)
A data frame with the PCR cycles and 60 qPCR runs from 12 replicates with 5 decreasing steps of PCR mix.
The replicates are defined by FX.Y (X = PCR mix dilution number, Y = replicate number).
For example:
F1.X 100% Mix
F2.X 90% Mix
F3.X 80% Mix
F4.X 70% Mix
F5.X 60% Mix
The real-time PCR was conducted with primers for the NADH dehydrogenase 1 in a Lightcycler 480 (Roche). The data is background subtracted.
Supplemental data 1 to the paper.
A new real-time PCR method to overcome significant quantitative inaccuracy due to slight amplification inhibition.
Guescini M et al, BMC Bioinformatics, 2008, 9: 326.
## Not run: ### effect of decreasing mix ### on PCR efficiency data(guescini2) ml <- modlist(guescini2, fct = l5()) effs <- sapply(ml, function(x) efficiency(x, plot = FALSE)$eff) ### mean for the replicates tapply(effs, gl(5, 12), function(x) mean(x, na.rm = TRUE)) ## End(Not run)