Each estimate of R was outside the CI associated with its counterpart, suggesting a significant difference in the extent of divergence between protein quantities and transcript quantities.
However, the relation between original protein quantity in the sample and measured spot intensity is influenced by various intervening factors: loss of sample during entry into the IEF gel, efficiency of transfer from first to second dimension, protein loss during staining, staining efficiency, a protein's staining curve over time, staining curve over concentration, and dye bleaching.
Because of the quantification and the normalization of the spot intensity, one should realize that the relationship between the original protein quantity in the sample and the measured spot intensity is affected by various intervening factors.
In contrast, no such relationship between individual protein quantities was observed, and in the case of Antigen85 B, this variation even extends within biological replicates of individual isolates.
PCA was used to demonstrate similarities in protein quantity between different gels and to gain insight into possible proteome x transgene interactions in the dataset.
The FRET signal is affected by numerous variables, e.g. the chosen fluorophores, sterical orientation of the fluorophores, expression and size of the fusion protein, quantity of interacting proteins and, finally, distance between both interaction partners [3], [4].
Our result that ATP concentration at the peak of the PACTIN-PxRe oscillations was significantly higher than that at the trough, while the PxRe protein quantity was constant between the peak and the trough of the oscillations, indicates that the PACTIN-PxRe oscillations reflect ATP oscillations.
Vogel and Marcotte [33] suggested that the correlation between mRNA and protein quantities is approximately 40%.
Protein quantity was measured by Bradford assay and an equal quantity of total protein (15 μg) was applied on 10 or 12.5% SDS – PAGE.
