O18Quant: a semiautomatic strategy for quantitative analysis of high-resolution 16O/18O labeled data.

ABSTRACT: Proteolytic (18)O-labeling has been widely used in quantitative proteomics since it can uniformly label all peptides from different kinds of proteins. There have been multiple algorithms and tools developed over the last few years to analyze high-resolution proteolytic (16)O/(18)O labeled mass spectra. We have developed a software package, O18Quant, which addresses two major issues in the previously developed algorithms. First, O18Quant uses a robust linear model (RLM) for peptide-to-protein ratio estimation. RLM can minimize the effect of outliers instead of iteratively removing them which is a common practice in other approaches. Second, the existing algorithms lack applicable implementation. We address this by implementing O18Quant using C# under Microsoft.net framework and R. O18Quant

SUBMITTER: Guo Y 

PROVIDER: S-EPMC4037588 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature