Methods and Algorithms for Quantitative Proteomics by Mass Spectrometry.

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ID: 52994
2020
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Ranked #11 of 139 articles by views in methods in molecular biology (clifton, nj)

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Abstract
Protein quantitation by mass spectrometry has always been a resourceful technique in protein discovery, and more recently it has leveraged the advent of clinical proteomics. A single mass spectrometry analysis experiment provides identification and quantitation of proteins as well as information on posttranslational modifications landscape. By contrast, protein array technologies are restricted to quantitation of targeted proteins and their modifications. Currently, there are an overwhelming number of quantitative mass spectrometry methods for protein and peptide quantitation. The aim here is to provide an overview of the most common mass spectrometry methods and algorithms used in quantitative proteomics and discuss the computational aspects to obtain reliable quantitative measures of proteins, peptides and their posttranslational modifications. The development of a pipeline using commercial or freely available software is one of the main challenges in data analysis of many experimental projects. Recent developments of R statistical programming language make it attractive to fully develop pipelines for quantitative proteomics. We discuss concepts of quantitative proteomics that together with current R packages can be used to build highly customizable pipelines.
Reference Key
matthiesen2020methodsmethods Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Matthiesen, Rune;Carvalho, Ana Sofia;
Journal methods in molecular biology (clifton, nj)
Year 2020
DOI
10.1007/978-1-4939-9744-2_7
URL
Keywords
Mass spectrometry liquid chromatography label-free quantitation peptide quantitation protein quantitation stable isotope labeling

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