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The activity quantification ratio between the 22 and the 37 mm spheres was improved with the increasing number of iterations and subsets and decreasing filter size.
Table 1 The preparation conditions for the samples and quantitative ratio between oxygen and cobalt Deposit V e (kV) I e (nA) O/Co I(L2)/I(L3) 1 30 0.044 0.85 0.27 2 30 2.400 0.04 0.30 Summary of growth parameters, beam energy (V e) and current (I e), EELS quantification ratio between oxygen and cobalt and the average L2/L3 intensity ratios in Co L2,3 edge (see text for details).
The 16 h to 11 h quantification ratio calculated for 420 common proteins identified in runs 1 and 2 resulted in a median CV of 0.081 while the 38 h to 11 h ratios estimated for 382 proteins identified in both runs 2 and 3 gave a median CV of 0.138.
mRNA levels are expressed as a relative quantification ratio between the candidate and the reference genes.
cError factor of the quantification (measure of the error in the average quantification ratio as calculated by Protein Pilot 3.0 software).
In this case the quantification ratio can be easily calculated as the abundance ratio of the two features over their total elution time.
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Numerous factors like peptide concentration and amino acid composition can influence the quality of spectra and hence the apparent quantification ratios obtained from iTRAQ experiments.
In estimating quantification ratios, peptides where the total ion counts of iTRAQ peaks were below a threshold of 40 were excluded.
Of the 894 genes selected earlier, we chose to analyze only 798 gene products for which quantification ratios from at least four out of eight time points could be determined from both microarray and proteomic experiments.
First, a protein has to be quantified based on two or more razor peptides and quantification ratios for all peptides should display consistency.
Software tools could still potentially investigate such cases by looking for unexplained peaks in MS/MS spectra or unexpected quantification ratios.
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