The proteome of Goji berries (Lycium barbarum) has been investigated in depth by using the combinatorial peptide ligand libraries (CPLL) technology. Since, in general, when plant samples are solubilized under native conditions, a limited number of identifications ensues, we have tried here solubilization under both native and denaturing conditions. In the latter case, since up to 3% SDS is used, the amount of surfactant is diluted to 0.1% or else proteins are precipitated with acetone/methanol, followed by CPLL capture. Under these conditions, a total amount of 350 proteins has been univocally identified, which represents by far the deepest proteomic investigation of Goji berries.