Review of factors that influence the abundance of ions produced in a tandem mass spectrometer and statistical methods for discovering these factors.


Barton, SJ; Whittaker, JC; (2008) Review of factors that influence the abundance of ions produced in a tandem mass spectrometer and statistical methods for discovering these factors. Mass spectrometry reviews, 28 (1). pp. 177-87. ISSN 0277-7037 DOI: https://doi.org/10.1002/mas.20188

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Abstract

Proteomic technologies are important because they link genes, proteins and disease. The identification of proteins and peptides has been revolutionized in the last decade by the use of mass spectrometry. This method is highly sensitive and much faster than the chemical reactions used previously because it can fragment peptides in seconds rather than in hours or days. Proteins are digested with an enzyme, usually trypsin, and the resulting peptides are fragmented in a tandem mass spectrometer (MS/MS). The masses of the fragment ions formed in the MS/MS can be used to identify the sequence of amino acids in the peptides. However, a number of different factors have been found to influence the amount of the various types of fragment ion formed. In this article, we review these factors and their interrelation together with the statistical methods used to discover them. Information on the number of fragment ions formed is at present underused in peptide identification algorithms, and fully utilizing this information could improve current algorithms.

Item Type: Article
Faculty and Department: Faculty of Epidemiology and Population Health > Dept of Non-Communicable Disease Epidemiology
PubMed ID: 18680189
Web of Science ID: 262072600010
URI: http://researchonline.lshtm.ac.uk/id/eprint/7147

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