Figure 1.

Integrated Proteomic Workflow: Samples of interest are subjected to protein extraction and digestion. The resulting peptides are separated by C18 chromatography and directly electrosprayed into the mass spectrometer, where their mass-to-charge ratio and fragmentation spectra is recorded. MS data is analysed to identify and quantify the detected peptides, and assemble it to proteins. Once the proteomics analysis per se is finished, the functional analysis of the relevant differential proteins may unmask pathways, interactions, PTM's relevant for the biological question of interest. This in silico information can be used to formulate new hypothesis that could be eventually used to interrogate the biological system again.