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The results reported in this paper have been obtained by applying a geometric face normalisation based on the eyes positions.
Semi-quantitative PCR was performed on different tissues upon cDNA normalisation based on the expression of the actin gene and visualised on agarose gel stained with ethidium bromide.
We used miRNA-16 as the endogenous control for data normalisation based on the fact that none of the miRNAs levels were significantly different between the two groups when using U6snRNA.
The individual blank and spiked samples were analysed on three different occasions and calculations were carried out as suggested by Antignac et al. [ 42], but without a normalisation based on the signal of the internal standards.
The gene expression was calculated with the method 2-∆∆CT, and the results obtained for each group were quantitatively compared after the normalisation based on the expression of Canis familiaris glyceraldehyde 3-phosphate dehydrogenase (GAPDH).
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The normalisation based on polyA RNA is similar to the use of the expression levels of all genes for a normalisation in microarray experiments.
Three approaches were used to normalise the miRNA expression data: global normalisation and endogenous gene normalisation based on RNU44 and RNA48 (Ichimi et al, 2009; Kano et al, 2010).
Finally, the ranking of the reduced compound set was obtained using a normalisation based on molecular weight [3] and a consensus scoring in a restrictive way using Chemscore and ASPscore.
DESeq uses a negative binomial distribution to model genic read counts following normalisation based on size factors and variance.
Semi-quantitative PCR was performed upon cDNA normalisation based on VvUbiquitin1 expression and visualised in a 1% agarose gel stained with ethidium bromide, or on SSCP gel stained with silver nitrate.
Calculating a combination normalisation factor based on the geometric mean of three genes for the kairomone experiment and for the growth experiment, stressor-specific regulation of some of the genes involved in basic metabolism is demonstrated.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com