Robust micro-flow LC-MS/MS for proteome analysis – 38,000 runs and counting
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ABSTRACT: Micro-flow liquid chromatography tandem mass spectrometry (µLC–MS/MS) is increasingly becoming an alternative to nano-LC–MS/MS for the analysis of proteomes. We have recently demonstrated the potential of a µLC–MS/MS system operating with a 1 mm i.d.?×?150?mm column and at a flow rate of 50?µl/min for high-throughput applications. Based on the analysis of ~38,000 samples measured on two instruments over the past two years, we show that the approach is extremely robust. Up to 1,500 analysis were performed within one month and >14,000 samples could be analyzed on a single column without loss of chromatographic performance. Samples included proteomes of cell lines, animal tissue and human body fluids, which were analyzed either with or without prior peptide fractionation or stable isotope labeling. We show that the µLC–MS/MS system is capable of measuring ~2,700 proteins from human plasma and ~5,200 proteins from human urine within one day, demonstrating its potential for in-depth as well as high-throughput clinical application.
INSTRUMENT(S): Q Exactive HF-X
ORGANISM(S): Homo Sapiens (ncbitaxon:9606)
SUBMITTER:
Bernhard Kuster
PROVIDER: MSV000098370 | MassIVE | Fri Jun 27 19:52:00 BST 2025
SECONDARY ACCESSION(S): PXD023650
REPOSITORIES: MassIVE
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