Method for reliable ratio quantification in mass spectrometry

In modern life sciences, mass spectrometry (MS) is often used as an analytic tool.

The presented method tackles the problem encountered when trying to quantify the ratio of e.g. two distinct target peptides, like phosphorylated vs. non-phosphorylated peptides. Therefore the method uses chemically synthesized peptides that contain both target peptides separated by a protease recognition site. The peptides are then cleaved by the respective protease, resulting in a mixture of the two target peptides with a stoichiometry defined solely by the design of the original peptide (see figure). The ratio of the target peptides in a sample can then easily be estimated by double ratio calculation.

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