The invention discloses a
label-
free protein quantification method based on a
mass spectrum. The
label-
free protein quantification method comprises the following steps: acquiring corresponding theoretical
peptide fragment set by theoretical
enzyme digestion of a theoretical
protein sequence
data bank; extracting extracted-
ion-flow chromatograms (XIC) of all ions on a primary
mass spectrum (MS) and calculating corresponding
retention time (RS) and
mass-to-charge ratios (M / Z) on the extracted-
ion-flow chromatograms; establishing a multi-mapping relation table about isotopic distribution and
retention time of the theoretical
peptide fragment set and the extracted-
ion-flow chromatograms. According to the method, a
label-
free protein quantification
algorithm combined with an intelligent optimization
algorithm is adopted, the optimal mapping relation between the theoretical
peptide fragment set and the extracted-ion-flow chromatograms is obtained from the multi-mapping relation table by means of the intelligent optimization
algorithm, and a quantification result is obtained. By means of efficient
qualitative analysis of peptide fragments, higher
protein detection coverage can be realized, so that high-
throughput quantification of proteins is realized. Research proves that change of expressive abundance of the proteins in cells has great significance in early diagnosis of diseases.