Two-dimensional electrophoresis is still a very valuable tool in proteomics,
due to its reproducibility and its ability to analyze complete proteins.
However, due to its sensitivity to dynamic range issues, its most suitable use
in the frame of biomarker discovery is not on very complex fluids such as
plasma, but rather on more proximal, simpler fluids such as CSF, urine, or
secretome samples. Here, we describe the complete workflow for the analysis of
such dilute samples by two-dimensional electrophoresis, starting from sample
concentration, then the two-dimensional electrophoresis step per se, ending
with the protein detection by fluorescence
