Selecting Optimal Peptides for Targeted Proteomic Experiments in Human Plasma Using In Vitro Synthesized Proteins as Analytical Standards

In targeted proteomics, the development of robust methodologies is dependent upon the selection of a set of optimal peptides for each protein-of-interest. Unfortunately, predicting which peptides and respective product ion transitions provide the greatest signal-to-noise ratio in a particular assay...

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Bibliographic Details
Published inMethods in molecular biology (Clifton, N.J.) Vol. 1410; p. 207
Main Authors Bollinger, James G, Stergachis, Andrew B, Johnson, Richard S, Egertson, Jarrett D, MacCoss, Michael J
Format Journal Article
LanguageEnglish
Published United States 01.01.2016
Subjects
Blood Proteins - analysis
Humans
Peptides - analysis
Proteomics - methods
Proteotypic peptides
In vitro translation
Targeted proteomics
Selected reaction monitoring
Human plasma proteome
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Summary:In targeted proteomics, the development of robust methodologies is dependent upon the selection of a set of optimal peptides for each protein-of-interest. Unfortunately, predicting which peptides and respective product ion transitions provide the greatest signal-to-noise ratio in a particular assay matrix is complicated. Using in vitro synthesized proteins as analytical standards, we report here an empirically driven method for the selection of said peptides in a human plasma assay matrix.
ISSN:1940-6029
DOI:10.1007/978-1-4939-3524-6_12