Figure 5.

Overlap of identified proteins between the 2-D repetitive and 3-D methods. The two methods identified 2555 common proteins with two or more peptides per protein (90% of the total proteins identified in the smaller 2-D/replicate-run data set). Of the 295 apparently unique proteins in the 2-D method, 184 proteins were identified in the 3-D data set by one peptide. The pie charts in the lower panels show the number of peptide hits for the 2-D method for the proteins that were not directly identified in the 3-D data set (111 proteins or 3.9% of the proteins in the 2-D data set) and those identified by a single peptide in the 3-D data set (183 proteins or 6.5% of the proteins in the 2-D data set).