Large-scale label-free phosphoproteomics: from technology to data interpretation.
Protein phosphorylation plays a central role in the dynamic intracellular signaling and the control of biochemical pathways in all living cells. Recent advances in high-performance MS/MS-based technology make the large-scale identification and quantification of phosphorylation sites possible. Here, we review the full data generation pipeline, starting from sample preparation methods and LC-MS detection procedures, through to data processing and analysis software tools that facilitate the systematic comparative profiling of thousands of phosphoproteins in different biological specimens in a single experiment. We emphasize current challenges and promising avenues for the mechanistic interpretation and visualization of global phosphorylation networks and their relevance to human health and disease.
Banting & Best Department of Medical Research, Donnelly Centre for Cellular & Biomolecular Research, University of Toronto, Toronto, ON M5S, Canada.
Hongbo
H
Guo
Ruth
R
Isserlin
Andrew
A
Lugowski
Uros
U
Kuzmanov
Andrew
A
Emili
D053000:Analytic Sample Preparation Methods; D002853:Chromatography, Liquid; D003627:Data Interpretation, Statistical; D006801:Humans; D010750:Phosphoproteins / Q000737:chemistry / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D053719:Tandem Mass Spectrometry
D010750:Phosphoproteins