Advantages and Disadvantages of Proteomic Platforms

Medium resolution Semi-quantitative Differential expression Detects PTMs Medium resolution Semi-quantitative Improved differential Detects PTMs Low resolution Rapid profiling biofluids Signatures Small sample size Immunoaffinity separation Rapid multiplex analysis Immunoaffinity protein ID Small sample size 

Low sensitivity Low-global separation Solubilization problems Basic, hydrophobic proteins poorly soluble Improved sensitivity Low-global separation Solubilization problems Basic, hydrophobic proteins poorly soluble Protein ID difficult Low-global separation Limited mass range Prefractionation needed for better resolution Limited validated Ab s Cross-reactivity epitopes Semi-quantitative Protein-protein interactions may mask epitope sites 

Sensitive, semi-quantitative Sensitive, quantitative High resolution In vivo or in vitro labeling No labeling necessary Bidifferential expression Small sample size Detects PTMs Sensitive, quantitative In vivo or in vitro labeling 4 stable isotope labels Detects PTMs Sensitive, quantitative Cell culture labeling Bidifferential expression Detects PTMs 

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