Mass spectrometric protein maps for biomarker discovery and clinical research. (November 2013)

• Record Type: Journal Article
• Authors: Liu, Yansheng; Hüttenhain, Ruth; Collins, Ben; Aebersold, Ruedi
• Is Part Of: Expert review of molecular diagnostics. Volume 13:Number 8(2013)
• Page Start: 811
• Page End: 825
• Publication Date: 2013-11
• Subjects: biomarker discovery -- diagnostics -- digital maps -- mass spectrometry -- proteomics -- reference maps -- selected reaction monitoring -- SWATH MS; Molecular diagnosis -- Periodicals; 616.0758205
• DOI: 10.1586/14737159.2013.845089
• Languages: English
• ISSNs: 1473-7159

Abstract

Among the wide range of proteomic technologies, targeted mass spectrometry (MS) has shown great potential for biomarker studies. To extend the degree of multiplexing achieved by selected reaction monitoring (SRM), we recently developed SWATH MS. SWATH MS is a variant of the emerging class of data-independent acquisition (DIA) methods and essentially converts the molecules in a physical sample into perpetually re-usable digital maps. The thus generated SWATH maps are then mined using a targeted data extraction strategy, allowing us to profile disease-related proteomes at a high degree of reproducibility. The successful application of both SRM and SWATH MS requires the a priori generation of reference spectral maps that provide coordinates for quantification. Herein, we demonstrate that the application of the mass spectrometric reference maps and the acquisition of personalized SWATH maps hold a particular promise for accelerating the current process of biomarker discovery.