LRE Literature


A recent publication illustrating the utility of LRE-based absolute quantification for gene expression analysis, including the analysis of nine reference genes:
Rutledge et al. (2013) Potential link between biotic defense activation and recalcitrance to induction of somatic embryogenesis in shoot primordia from adult trees of white spruce (Picea glauca). BMC Plant Biology 13:116

Description of the LRE Analyzer, a desktop Java program that automates LRE qPCR:
Rutledge RG (2011) A Java program for LRE-based real-time qPCR that enables large-scale absolute quantification. PLoS ONE 6(3): e17636

Investigation into the performance of LRE analysis, along with an overview of how LRE analysis and absolute quantification are implemented:
Rutledge RG, Stewart D (2010) Assessing the Performance Capabilities of LRE-Based Assays for Absolute Quantitative Real-Time PCR. PLoS ONE 5(3): e9731. doi:10.1371/journal.pone.0009731

Introduction to LRE that describes the origins and implementation of LRE qPCR, along with the development of several new concepts for conducting absolute quantification:
Rutledge RG, Stewart D (2008) A kinetic-based sigmoidal model for the polymerase chain reaction and its application to high-capacity absolute quantitative real-time PCR. BMC Biotechnol 8: 47

Investigation into amplification efficiency determination that compares LRE to other methods, such as standard curves:
Rutledge RG, Stewart D (2008) Critical evaluation of methods used to determine amplification efficiency refutes the exponential character of real-time PCR. BMC Mol Biol 9: 96

An early qPCR paper describing how standard curves function, along with how absolute scale is derived from the mass of amplicon DNA at threshold, which was the origin of optical calibration:
Rutledge RG, Côté C: Mathematics of quantitative kinetic PCR and the application of standard curves. Nucleic Acids Res 2003, 31(16):e93.

An early attempt to apply sigmoidal mathematics to qPCR using nonlinear regression analysis, which was the foundation from which LRE was derived, along with the first application of optical calibration for conducting absolute quantification:
Rutledge RG: Sigmoidal curve-fitting redefines quantitative real-time PCR with the prospective of developing automated high-throughput applications. Nucleic Acids Res 2004, 32(22):e178.

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