The collected root tissue for Pythium quantification, consisting of six roots, was split in two biological replicates (except at time points 2, 10 & 20 DAG, where the limited material allowed to sample only 1 replicate) and was directly frozen in liquid nitrogen to preserve the DNA.
Multiplex amplicon quantification consists of a multiplex polymerase chain reaction amplification of fluorescently labelled target and control amplicons, followed by fragment analysis on an ABI3730 DNA Analyser (Applied Biosystems).
Quantification consisted in using crystal violet as the coloring agent.
We take the view that (except for low dimensional problems) Bayesian uncertainty quantification consists in producing a number of samples from the posterior distribution of the model parameters given the data.
For transcript quantifications, the target consisted of an aliquot of the diluted reverse transcriptase reaction containing the equivalent of 10 ng total RNA per amplification reaction, or for optical calibration, lambda gDNA (New England BioLabs) at a quantity specified in Figure 6, amplified with the lambda primers K7B-K12 (Table 4).
The quantification process consists of two steps.
An innovative uncertainty quantification framework consisting of; a set-theory based typology, a data library, a classification system, and a corresponding input-output model are put forward to address this research gap as the basis for future work in this field.
Standards were also included to enable the quantification of viral load, and consisted of mixtures containing varying amounts of HPV16 reference plasmid added to a constant background of normal human DNA (corresponding to 4, 20, 100, 500, and 2,500 viral copies per cell, assuming a diploid genome).
The strategy consisted of three stages: quantification, reagent dose selection and robustness analysis.
EMG analysis consisted of peak-to-peak quantification across states.
