Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries.

ABSTRACT: Quantitative phosphoproteomics has transformed investigations of cell signaling, but it remains challenging to scale the technology for high-throughput analyses. Here we report a rapid and reproducible approach to analyze hundreds of phosphoproteomes using data-independent acquisition (DIA) with an accurate site localization score incorporated into Spectronaut. DIA-based phosphoproteomics achieves an order of magnitude broader dynamic range, higher reproducibility of identification, and improved sensitivity and accuracy of quantification compared to state-of-the-art data-dependent acquisition (DDA)-based phosphoproteomics. Notably, direct DIA without the need of spectral libraries performs close to analyses using project-specific libraries, quantifying > 20,000 phosphopeptides in 15 min si

SUBMITTER: Bekker-Jensen DB 

PROVIDER: S-EPMC7005859 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature