Fig. 2From: A proteomic evaluation of urinary changes associated with cardiopulmonary bypassThe use of protein level intensity correlations between 2D DDA/IDA and SWATH runs to improve quantitation reliability. Comparison of log2 protein intensities a START of CPB b 1-hour CPB. c The expression of differences between SWATH and DDA/IDA readouts (at the same time point) as normalized Z-scores identifies proteins that show discordance between the two methods. This provides a basis for discarding the proteins with |Z| > 1.65 in either population (as shown by the red dots), the resulting 475 common proteins (86 % of the 552 protein initial list; the blue dots). This improved the cross-technology difference correlation to R2 = 0.549. d The correlation of difference values for the 77 proteins rejected by this filtering step, shown is very low (R2 = 0.01)Back to article page