Mass spectrometry-based high-throughput proteomics and its role in biomedical studies and systems biology
- PMID: 36349817
- DOI: 10.1002/pmic.202200013
Mass spectrometry-based high-throughput proteomics and its role in biomedical studies and systems biology
Abstract
There are multiple reasons why the next generation of biological and medical studies require increasing numbers of samples. Biological systems are dynamic, and the effect of a perturbation depends on the genetic background and environment. As a consequence, many conditions need to be considered to reach generalizable conclusions. Moreover, human population and clinical studies only reach sufficient statistical power if conducted at scale and with precise measurement methods. Finally, many proteins remain without sufficient functional annotations, because they have not been systematically studied under a broad range of conditions. In this review, we discuss the latest technical developments in mass spectrometry (MS)-based proteomics that facilitate large-scale studies by fast and efficient chromatography, fast scanning mass spectrometers, data-independent acquisition (DIA), and new software. We further highlight recent studies which demonstrate how high-throughput (HT) proteomics can be applied to capture biological diversity, to annotate gene functions or to generate predictive and prognostic models for human diseases.
Keywords: biomarker discovery; data-independent acquisition; dynamic biological systems; gene annotation; precision medicine; proteomics.
© 2022 The Authors. Proteomics published by Wiley-VCH GmbH.
References
REFERENCES
-
- Aebersold, R., & Mann, M. (2016). Mass-spectrometric exploration of proteome structure and function. Nature, 537, 347-355.
-
- Schubert, O. T., Röst, H. L., Collins, B. C., Rosenberger, G., & Aebersold, R. (2017). Quantitative proteomics: Challenges and opportunities in basic and applied research. Nature Protocols, 12, 1289-1294.
-
- Muntel, J., Gandhi, T., Verbeke, L., Bernhardt, O. M., Treiber, T., Bruderer, R., & Reiter, L. (2019). Surpassing 10000 identified and quantified proteins in a single run by optimizing current LC-MS instrumentation and data analysis strategy. Molecular Omics, 15, 348-360.
-
- Meier, F., Geyer, P. E., Virreira Winter, S., Cox, J., & Mann, M. (2018). BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes. Nature Methods, 15, 440-448.
-
- Hebert, A. S., Prasad, S., Belford, M. W., Bailey, D. J., McAlister, G. C., Abbatiello, S. E., Huguet, R., Wouters, E. R., Dunyach, J. J., Brademan, D. R., Westphall, M. S., & Coon, J. J. (2018). Comprehensive single-shot proteomics with FAIMS on a hybrid orbitrap mass spectrometer. Analytical Chemistry, 90, 9529-9537.
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