Automated protein turnover calculations from 15N partial metabolic labeling LC/MS shotgun proteomics data.

ABSTRACT: Protein turnover is a well-controlled process in which polypeptides are constantly being degraded and subsequently replaced with newly synthesized copies. Extraction of composite spectral envelopes from complex LC/MS shotgun proteomics data can be a challenging task, due to the inherent complexity of biological samples. With partial metabolic labeling experiments this complexity increases as a result of the emergence of additional isotopic peaks. Automated spectral extraction and subsequent protein turnover calculations enable the analysis of gigabytes of data within minutes, a prerequisite for systems biology high throughput studies. Here we present a fully automated method for protein turnover calculations from shotgun proteomics data. The approach enables the analysis of complex shotgun

SUBMITTER: Lyon D 

PROVIDER: S-EPMC3988089 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature