Glossary
137
Applied Biosystems StepOne™ and StepOnePlus™ Real-Time PCR Systems Getting Started Guide for Standard
Curve Experiments
serial factor In the StepOne
™
software, a numerical value that defines the sequence of quantities in the
standard curve. The serial factor and the starting quantity are used to calculate the
standard quantity for each point in the standard curve. For example, if the standard curve
is defined with a serial factor of 1:10 or 10✕, the difference between any 2 adjacent points
in the curve is 10-fold.
series See standard dilution series.
slope Regression coefficient calculated from the regression line in the standard curve. The slope
indicates the PCR amplification efficiency for the assay. A slope of −3.32 indicates 100%
amplification efficiency. See also amplification efficiency (EFF%) and regression line.
SNP Abbreviation for single nucleotide polymorphism. The SNP can consist of a base
difference or an insertion or deletion of one base.
SNP assay Used in genotyping experiments, a PCR reaction that contains primers to amplify the SNP
and two probes to detect different alleles.
SNP Assay Library In the StepOne
™
software, a collection of SNP assays to add to genotyping experiments.
The SNP assays in the library contain the SNP assay name, SNP assay color, and for each
allele, the allele name or base(s), reporter, quencher, and allele colors. The SNP assays in
the library may also contain the assay ID and comments about the SNP assay.
spatial calibration Ty p e o f StepOne
™
and StepOnePlus
™
system calibration in which the system maps the
positions of the wells in the sample block(s). Spatial calibration data are used so that the
software can associate increases in fluorescence during a run with specific wells in the
reaction plate.
stage In the thermal profile, a group of one or more steps. There are three types of stages:
holding stage (including pre-PCR read and post-PCR read), cycling stage (also called
amplification stage), and melt curve stage.
standalone layout A system layout in which the StepOne
™
or StepOnePlus
™
instrument is not connected to
a computer by the yellow cable. In this layout, you control the instrument only with the
instrument touchscreen, and you use a USB drive or network connection to transfer data
between the instrument and computer.
standard Sample that contains known standard quantities. Standard reactions are used in
quantitation experiments to generate standard curves. See also standard curve and
standard dilution series.
standard curve In standard curve and relative standard curve experiments:
• The best-fit line in a plot of the C
T
values from the standard reactions plotted
against standard quantities. See also regression line.
• A set of standards containing a range of known quantities. Results from the standard
curve reactions are used to generate the standard curve. The standard curve is
defined by the number of points in the dilution series, the number of standard
replicates, the starting quantity, and the serial factor. See also standard dilution
series.