Recent advances in phosphoproteomics based on mass spectrometry and its clinical application prospects

Protein phosphorylation, a key post-translational modification, plays a crucial role in regulating cellular activities in eukaryotes. Dysregulation of phosphorylation is closely linked to the pathogenesis of various diseases Recent advancements in phosphoproteomics have driven substantial improvements in mass spectrometry technologies, enrichment strategies, and data analysis methodologies, thereby offering a powerful and precise tool for elucidating the spatiotemporal dynamics of phosphorylation events. Nevertheless, several challenges remain, such as the limited sensitivity for detecting low-abundance signals, throughput constraints of single-cell technologies, and the absence of standardized workflows, all of which impede clinical translation. Moving forward, AI-driven experimental design, spatial omics coupling, and interdisciplinary technological integration will drive the transition of phosphoproteomics from basic research to precision medicine, providing novel insights for disease diagnosis and treatment. This review aims to comprehensively summarize recent technological developments and future trends in phosphoproteomics, focusing on its clinical translation potential and associated challenges.