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Fig.1 Qualitative and quantitative assessment of E3technology (E3 filter) for E. coli proteome analysis. (A-C) Comparison of the number of proteins, peptides, and PSMs between  the E3filter, FASP, and SP4-GB approaches. Error bars represent three replicates. (D-E) Overlapping analyses of proteins and peptides derived from the three methods. (F) Coefficient of variation of quantified proteins by the three methods. (G) Coefficient of variation of quantified peptides. (H) Pearson correlation between replicate experiments and different methods. (I) Percentages of missed cleavages. (J-K) Volcano plot of showing significantly differential proteins between the three methods. The two curves show FDR 0.05 and 0.01, respectively. (L) Heatmap of the overall quantified proteins by the three methods. FASP, filter aided sample preparation; SP4, Solvent Precipitation SP3; GB, glassbeads.

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