In order to identify proteomic features specifically associated with the BRAFV600E mutation in colon cancer and to exclude, at the same time, the possible interference resulting from the genetic diversity of different cell lines, we performed comparative proteomic profiling of the three selected colon cancer cell lines having the same MSI status, wt PTEN, wt PIK3CA and mutated p53, and differing only in BRAF/KRAS mutational status as follows: HT-29 (BRAFV600E/KRASwt), SW480 (BRAFwt/KRASG12V) and Caco-2 (BRAFwt/KRASwt). The gene discussed is BRAF; the disease is malignant colon neoplasm.