The invention discloses a variant distinguishing glycoprotein detection chip based on combination of SERS (surface enhanced Raman scattering) displacement and intensity and belongs to the technical field of SERS detection. Antibody nanogold and a silver assembly membrane with Raman activity and good biocompatibility are used as substrates for the first time, an SERS-based sandwich structure protein chip capable of reading variant% is designed, and the most potential application of the protein chip is early diagnosis of liver cancer at present. In the early diagnosis of liver cancer, the protein chip can greatly improve the diagnosis accuracy due to the high distinguishing capacity for AFP (alpha fetoprotein). The latest quantitative method (displacement of Raman characteristic peaks) and an old quantitative method (internal standard and characteristic peak relative intensity) are combined for the first time in the quantitative manner for detecting the read variant%. The chip can also be applied to distinguishing and detection of other homologous variant proteins, false positive and false negative caused by traditional immune methods can be effectively eliminated, and the chip production cost is reduced.