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Sample preparation using the protein extraction buffer with or without protease inhibitors (PI) led to different numbers of identified peptides. Proteins were extracted from mouse lymphoma cells (L5178Y/Tk+/−3.7.2C). Error bars indicate standard error of the mean. The number of identified peptides is significantly higher for the samples without protease inhibitors than that with protease inhibitors (p < 0.002, paired t-test, n = 11 pairs of “PI Plus” versus “PI Minus”).
