Recently, the lab of Dr. Markus Ralser from University of Cambridge published a paper in Scientific Reports that we would like to share with you. We’re proud of our colleagues Jakob Vowinckel, Roland Bruderer, and Lukas Reiter, who made significant contributions to this study.
Title of Publication:
Cost-Effective Generation of Precise Label-Free Quantitative Proteomes in High-Throughput by MicroLC and Data-Independent Acquisition
Quantitative proteomics workflows based on data independent acquisition (DIA) are now widely adopted in basic biomedical research. The technology allows very broad coverage of the proteome with high-sample-throughput. However, the same technology is not well established in laboratories yet, where very large sample series of hundreds of thousands of samples are processed, like in clinical proteomics. There are several technical considerations that make it difficult to up-scale proteomics experiments. One of the most significant is the robustness of the chromatography. Most of the current DIA workflows rely on nano flow rate chromatography (nanoLC) setups that are not robust enough for processing very large sample cohorts. One of the solutions for this is to use larger diameter columns and higher flow rates such as micro flow chromatography setup (microLC).
In this publication, the authors investigated the relationship of sensitivity to flow rate for a proteomics DIA workflow. They showed that, with nowadays ion sources and mass spectrometers, the loss in sensitivity is minimal and the gain in chromatographic stability is significant when using the microLC setup. Hence, choosing higher flow rates is a viable strategy to increase the sample throughput in proteomics.
You can read the publication in its entirety here.