A data-independent acquisition-based global phosphoproteomics system enables deep profiling

Phosphoproteomics can provide insights into cellular signaling dynamics. To achieve deep and robust quantitative phosphoproteomics profiling for minute amounts of sample, we here develop a global phosphoproteomics strategy based on data-independent acquisition (DIA) mass spectrometry and hybrid spec...

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Bibliographic Details
Published in:Nature communications 2021-05, Vol.12 (1), p.2539-2539, Article 2539
Main Authors: Kitata, Reta Birhanu, Choong, Wai-Kok, Tsai, Chia-Feng, Lin, Pei-Yi, Chen, Bo-Shiun, Chang, Yun-Chien, Nesvizhskii, Alexey I., Sung, Ting-Yi, Chen, Yu-Ju
Format: Article
Language:English
Subjects:
631/1647/296
631/45/475
631/67/1612/1350
631/80/458/1733
82/16
82/58
82/80
96/95
Biotechnology
Cell Line, Tumor
Coefficient of variation
Depth profiling
Drug resistance
Humanities and Social Sciences
Humans
INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY
Libraries
Localization
Lung cancer
Lung Neoplasms - metabolism
Mass spectrometry
Mass spectroscopy
MATHEMATICS AND COMPUTING
multidisciplinary
Phosphopeptides - metabolism
Phosphorylation
Proteins - metabolism
Proteome - analysis
Proteomics
Science
Science (multidisciplinary)
Sensitivity
Signaling
Spectra
Tandem Mass Spectrometry - methods
Tumor cell lines
Workflow
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Description
Summary:Phosphoproteomics can provide insights into cellular signaling dynamics. To achieve deep and robust quantitative phosphoproteomics profiling for minute amounts of sample, we here develop a global phosphoproteomics strategy based on data-independent acquisition (DIA) mass spectrometry and hybrid spectral libraries derived from data-dependent acquisition (DDA) and DIA data. Benchmarking the method using 166 synthetic phosphopeptides shows high sensitivity (
ISSN:2041-1723
2041-1723
DOI:10.1038/s41467-021-22759-z