Figure 2: Total and estrogen-regulated proteinsidentified from MCF-7 cells after ChlAPI and nanoLC-MS/MS. (A) Venn diagram showing the total number of proteinsidentified by mass spectrometry analysis of aqueous and organic phase samples from control (-E2) and treated (+E2) MCF-7 cells with a false discovery rate of <1%. (B) Protein expression ratio distribution of MCF-7 proteins identified from both control and E2-treated samples. Entrez accessions for common proteins listed in ‘A’ are further curated to remove redundant identifi cations (Keen and Davidson). Protein spectral count (log 2) ratios were placed into bins separated by 0.27 and plotted against the number of proteins in each bin. Those that are marked green and red are considered true differentials and are unexpected by chance based on threshold. (B) Venn diagram showing the number of estrogen down- and up-regulated proteins based on the cut-off used. Proteins shown in the middle are considered unchanged based on the threshold used.