High-flow chromatography for reproducible and high-throughput quantification of proteomes

This study evaluates liquid-chromatography operated at 50 ul/min using 1 mm diameter columns coupled online to tandem mass spectrometry (LC-MS/MS) for proteome analysis. Data from >1,000 human cell line, tissue, body fluid, affinity- and phospho-proteomes demonstrate excellent chromatographic (<0.3 % CV) and quantitative (<7.5% CV) reproducibility. Combined with sample multiplexing by tandem mass tags, the system allows profiling of 11 proteomes in 16 hours to a depth of 8,000 proteins.