Liquid-chromatography – tandem mass spectrometry (LC-MS/MS) enables highly accurate quantification of thousands of proteins. However, the sensitivity is inversely proportional to sample complexity and further decreases when shorter analysis times are applied to increase the throughput. To address these drawbacks, we are applying an alternative measurement strategy termed data-independent acquisition (DIA).
DIA offers the same or better quantitative accuracy as conventional measurements. It further reaches higher sensitivity and proteome coverage at the same time, especially in challenging cases. The number of proteins identified and quantified from a complex sample in a rapid analysis is increased several-fold by DIA. This facilitates proteome screens and paves the way for high-throughput proteomics, which is required in translational research.