Performance of different fractionation methods for quantitative proteomics analyses of membrane proteins from control and TNF-alpha activated mouse macrophages

摘要

In total, we identified 3103 unique proteins including 550 transmembrane proteins for all three fractionation methods. SCX provided the highest number of identified proteins. mRP and GelFREE fractionation appear to exhibit a slight advantage for quantitative proteomics analyses of membrane proteins in mouse macrophages - further evaluations ongoing. This study provides the most comprehensive analysis of the macrophage membrane proteome and provides interesting insights on the composition of the macrophage membrane compartment. The biological relevance of differentially regulated proteins upon TNF-alpha stimulation will be further examined and validated by cell biology methods.