Assigning Significance in Label-Free Quantitative Proteomics to Include Single-Peptide-Hit Proteins with Low Replicates
Figure 4
Clustering of the 20 quantitation categories based on the 349 proteins quantified from the 3rd gel fraction for the five protein samples , , , , and . Each protein sample contained the proteins from an unlabeled culture plus the labeled proteins from the control culture. Because a sample was run twice in LC/MS analysis, each protein sample had four quantitation categories of which two were for the unlabeled proteins and two for the labeled proteins. For example, had and for the unlabeled proteins from culture S and c and c for the labeled proteins from culture C. The subscripts “1” and “2” indicate the duplicate LC/MS injections for a sample.
