Issue 3, 2023

Overview and considerations in bottom-up proteomics

Abstract

Proteins are the key biological actors within cells, driving many biological processes integral to both healthy and diseased states. Understanding the depth of complexity represented within the proteome is crucial to our scientific understanding of cellular biology and to provide disease specific insights for clinical applications. Mass spectrometry-based proteomics is the premier method for proteome analysis, with the ability to both identify and quantify proteins. Although proteomics continues to grow as a robust field of bioanalytical chemistry, advances are still necessary to enable a more comprehensive view of the proteome. In this review, we provide a broad overview of mass spectrometry-based proteomics in general, and highlight four developing areas of bottom-up proteomics: (1) protein inference, (2) alternative proteases, (3) sample-specific databases and (4) post-translational modification discovery.

Graphical abstract: Overview and considerations in bottom-up proteomics

Article information

Article type
Tutorial Review
Submitted
28 יול 2022
Accepted
13 נוב 2022
First published
14 נוב 2022

Analyst, 2023,148, 475-486

Overview and considerations in bottom-up proteomics

R. M. Miller and L. M. Smith, Analyst, 2023, 148, 475 DOI: 10.1039/D2AN01246D

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