GOAT--a simple LC-MS/MS gradient optimization tool.

ABSTRACT: Modern nano-HPLC systems are capable of extremely precise control of solvent gradients, allowing high-resolution separation of peptides. Most proteomics laboratories use a simple linear analytical gradient for nano-LC-MS/MS experiments, though recent evidence indicates that optimized non-linear gradients result in increased peptide and protein identifications from cell lysates. In concurrent work, we examined non-linear gradients for the analysis of samples fractionated at the peptide level, where the distribution of peptide retention times often varies by fraction. We hypothesized that greater coverage of these samples could be achieved using per-fraction optimized gradients. We demonstrate that the optimized gradients improve the distribution of peptides throughout the analysis. Using pr

SUBMITTER: Trudgian DC 

PROVIDER: S-EPMC4375517 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature