RQdeltaCT - Relative Quantification of Gene Expression using Delta Ct
Methods
The commonly used methods for relative quantification of
gene expression levels obtained in real-time PCR (Polymerase
Chain Reaction) experiments are the delta Ct methods,
encompassing 2^-dCt and 2^-ddCt methods, originally proposed by
Kenneth J. Livak and Thomas D. Schmittgen (2001)
<doi:10.1006/meth.2001.1262>. The main idea is to normalise
gene expression values using endogenous control gene, present
gene expression levels in linear form by using the 2^-(value)^
transformation, and calculate differences in gene expression
levels between groups of samples (or technical replicates of a
single sample). The 'RQdeltaCT' package offers functions that
cover both methods for comparison of either independent groups
of samples or groups with paired samples, together with
importing expression datasets, performing multi-step quality
control of data, enabling numerous data visualisations,
enrichment of the standard workflow with additional useful
analyses (correlation analysis, Receiver Operating
Characteristic analysis, logistic regression), and conveniently
export obtained results in table and image formats. The package
has been designed to be friendly to non-experts in R
programming.