Figure 4
Proteome quantitation, significance, and classification analysis. A, signal intensities of all quantified proteins after DNP treatment are shown as a function of their fold change. Ratios of most proteins distributed around 1.0 (Log10 (ratio) = 0), indicating that whole proteins of the two groups of cells were mixed equally and 6-10B cells were fully labeled. The spread of the cloud was lower at high abundance, indicating that quantification is more precise, and their fold change level is indicated in blue, red, and green, respectively. To reduce test error, proteins at more than 2.0-fold or less than 0.5-fold and p < 0.05 were deemed to indicate significantly changed proteins induced by DNP treatment. Together, this gives quantifiable results for 371 proteins being significantly altered upon DNP, with 172 and 199 proteins being up- and down-regulated, respectively. The 15 most abundant terms of component (B) and function annotation in disregulated proteins (C) are shown. As each protein is generally assigned to more than one term, the percentage of proteins in each term is shown instead of the total number to avoid redundancy. Number distribution of the 15 most abundant terms for up-regulated or down-regulated proteins (D). Oxidoreductase activity-1, 2, 3, and 4 represent respectively oxidoreductase activity, oxidoreductase activity acting on NADH or NADPH, oxidoreductase activity acting on the CH-CH group of donors, and oxidoreductase activity acting on the CH-CH group of donors, NAD or NADP as acceptor (E).