Toward enhanced MIQE compliance: reference residual normalization of qPCR gene expression data

Edmunds, Richard C., McIntyre, Jenifer K., Luckenbach, J. Adam, Baldwin, David H., and Incardona, John P. (2014) Toward enhanced MIQE compliance: reference residual normalization of qPCR gene expression data. Journal of Biomolecular Techniques, 25 (2). pp. 54-60.

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Abstract

Normalization of fluorescence-based quantitative real-time PCR (qPCR) data varies across quantitative gene expression studies, despite its integral role in accurate data quantification and interpretation. Identification of suitable reference genes plays an essential role in accurate qPCR normalization, as it ensures that uncorrected gene expression data reflect normalized data. The reference residual normalization (RRN) method presented here is a modified approach to conventional 2^-(ΔΔCt)qPCR normalization that increases mathematical transparency and incorporates statistical assessment of reference gene stability. RRN improves mathematical transparency through the use of sample-specific reference residuals (RRi) that are generated from the mean Ct of one or more reference gene(s) that are unaffected by treatment. To determine stability of putative reference genes, RRN uses ANOVA to assess the effect of treatment on expression and subsequent equivalence-threshold testing to establish the minimum permitted resolution. Step-by-step instructions and comprehensive examples that demonstrate the influence of reference gene stability on target gene normalization and interpretation are provided. Through mathematical transparency and statistical rigor, RRN promotes compliance with Minimum Information for Quantitative Experiments and, in so doing, provides increased confidence in qPCR data analysis and interpretation.

Item ID: 51378
Item Type: Article (Refereed Research - C1)
Keywords: ANOVA, normalization, reference genes, threshold cycle, treatment effect
ISSN: 1943-4731
Date Deposited: 02 Nov 2017 02:58
FoR Codes: 06 BIOLOGICAL SCIENCES > 0604 Genetics > 060405 Gene Expression (incl Microarray and other genome-wide approaches) @ 100%
SEO Codes: 97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 100%
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