RDML
RDML

MIqPCR - Glossary

  • Experiment description :
A sentence or short phrase describing the context of the experiment, or a stable pointer to contextualizing information, such as a database record or a publication.
  • Responsible person and contact details :
Contact details of the experiment supervisor, this includes the name and email address, and name and postal address of the institute
  • Sample ID :
Unique identifier for a given sample, to be used in the run data as reference for the sample.
  • Sample description :
A sentence or short phrase describing the sample.
  • cDNA synthesis method :
Enzyme and priming method used for cDNA synthesis. Possible priming methods are: oligo-dt, random, target specific or any combination of the above.
  • DNase treatment :
Boolean value to indicate whether nucleic acids have been treated or not with DNase. Possible values are true and false.
  • Template quantity :
Nucleic acid quantity of a standard sample
  • Sample type :
Describes the type of sample. Possible values are : unknown, no template control, no amplification control, standard or optical calibrator.
  • Inter-run calibrator :
Boolean value to indicate whether or not a sample can be used to detect and correct inter-run differences. Possible values are true and false.
  • Calibrator sample :
Indicates if a sample is used as a reference to rescale all relative measurements to (e.g. untreated control). Possible values are true and false.
  • Target ID :
Unique identifier for a given target, to be used in the run data as a reference to the detailed target information.
  • Sequence of primers :
Nucleotide sequence of the PCR primers. The amplicon sequence and optional 3- and 5-tags can also be mentioned.
  • Commercial assay description :
Short description of the commercial assay used for PCR amplification, includes at least company name and order number.
  • Target type :
Describes the use of a target. Possible values are: reference and target of interest.
  • PCR program :
Describes the thermal profile used for the PCR amplification and detection of accumulating amplicons. The program consist of one or multiple steps, each with it own characteristic information (e.g. duration, temperature, type of measurement, a loop with number of repeats, etc.)
  • PCR format :
Description of the run format used in the experiment (for example 96-well plate A1-H12, or 32-well rotor 1-32).
  • Instrument description :
Name of instrument and vendor
  • Software description and version :
Contains the name and version of the software used for the analysis. The methods used for determining the background and calculating the quantification cycle can be included as well.
  • Well ID :
Identifier for a given well. Format is free, but should preferably reflect the run format.
  • Amplification curve fluorescence values :
Contains the amplification fluorescence data for a given amplicon. The data is organized per sample and per amplicon with a corresponding cycle number for each data point.
  • Melting curve fluorescence values :
Contains the fluorescence data of the melting curve for a given amplicon. The data is organized per sample and per amplicon with a corresponding temperature for each data point.
  • Quantification Cycle (Cq) :
Universal name for the fractional PCR cycle at which the target is quantified in a given sample. Depending on the real-time instrument, either crossing point (Cp), cycle threshold (Ct) or a take-off point (Top) are used to refer to the same value (Cq).