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http://dx.doi.org/10.5012/bkcs.2014.35.3.845

Reduction of Ambiguity in Phosphorylation-site Localization in Large-scale Phosphopeptide Profiling by Data Filter using Unique Mass Class Information  

Madar, Inamul Hasan (Department of Chemistry, Research Institute for Natural Sciences, Korea University)
Back, Seunghoon (Department of Chemistry, Research Institute for Natural Sciences, Korea University)
Mun, Dong-Gi (Department of Chemistry, Research Institute for Natural Sciences, Korea University)
Kim, Hokeun (Department of Chemistry, Research Institute for Natural Sciences, Korea University)
Jung, Jae Hun (Department of Applied Chemistry, College of Applied Science, Kyung Hee University)
Kim, Kwang Pyo (Department of Applied Chemistry, College of Applied Science, Kyung Hee University)
Lee, Sang-Won (Department of Chemistry, Research Institute for Natural Sciences, Korea University)
Publication Information
Bulletin of the Korean Chemical Society / v.35, no.3, 2014 , pp. 845-850 More about this Journal
Abstract
The rapid development of shotgun proteomics is paving the way for extensive proteome profiling, while providing extensive information on various post translational modifications (PTMs) that occur to a proteome of interest. For example, the current phosphoproteomic methods can yield more than 10,000 phosphopeptides identified from a proteome sample. Despite these developments, it remains a challenging issue to pinpoint the true phosphorylation sites, especially when multiple sites are possible for phosphorylation in the peptides. We developed the Phospho-UMC filter, which is a simple method of localizing the site of phosphorylation using unique mass classes (UMCs) information to differentiate phosphopeptides with different phosphorylation sites and increase the confidence in phosphorylation site localization. The method was applied to large scale phosphopeptide profiling data and was demonstrated to be effective in the reducing ambiguity associated with the tandem mass spectrometric data analysis of phosphopeptides.
Keywords
Phosphoproteomics; Phosphorylation site; Unique mass class;
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