Large-Scale Plasma Proteomics With the Proteograph XT Workflow
This technical note shows how any lab can process hundreds of samples quickly and with confidence with the Proteograph XT assay kit.
Introduction
Proteins are functional drivers of biology and key indicators of homeostasis in living organisms. While proteomics can provide important mechanistic insights into the state of an organism, large scale proteomic studies have been limited due to challenges with accessibility, reproducibility, and complexity of existing workflows. Specifically impacted by these challenging workflows are complex samples, like blood plasma, which is easily accessible and interacts with many cells and tissues across the body making it an attractive sample type for proteomics analysis leading to biomarker discovery and early detection of many diseases like cancer. Due to the wide dynamic range of protein concentrations, deep interrogation of plasma has traditionally required laborious workflows that are low-throughput and are not scalable.
To address these limitations, we developed the Proteograph Product Suite to enable high-throughput, in-depth plasma proteome identification and quantification. The Proteograph XT Assay Kit, part of the Proteograph Product Suite, includes a panel of proprietary engineered nanoparticles (NPs) with distinct physicochemical properties, which allows sampling of plasma proteins across the wide dynamic range of the proteome, capturing quantitative differences across bio-samples, enabling unbiased biomarker discovery. Here, we describe the Proteograph XT workflow for complete plasma proteomics sample preparation using the SP100 Automation Instrument, Proteograph XT Assay Kit, and Proteograph Analysis Suite (PAS). We demonstrate the baseline comparison of the Proteograph workflow to neat plasma digestion workflow using a standardized liquid chromatography-mass spectrometry (LC-MS) method on the Orbitrap Exploris 480 (Thermo Fisher Scientific). Previous studies have shown that NPs provide access to low abundance proteins, enabling identification of potential novel biomarkers from samples such as blood plasma. With the Proteograph XT workflow, researchers will be able to perform unbiased, deep, and rapid proteomics at higher throughput than conventional, manual deep proteomics methods, while gaining new insights into complex biology.
Discover Seer Technology Access Programs & Services
Easily explore the protein universe with Seer. Our service providers and in-house Seer Technology Access Center (STAC) empower your research, accelerating results and deciphering the proteome at unprecedented depth and scale. Answer biology’s most challenging questions — faster.