Retention Time and Fragmentation Predictors Increase Confidence in Identification of Common Variant Peptides.

ABSTRACT: Precision medicine focuses on adapting care to the individual profile of patients, for example, accounting for their unique genetic makeup. Being able to account for the effect of genetic variation on the proteome holds great promise toward this goal. However, identifying the protein products of genetic variation using mass spectrometry has proven very challenging. Here we show that the identification of variant peptides can be improved by the integration of retention time and fragmentation predictors into a unified proteogenomic pipeline. By combining these intrinsic peptide characteristics using the search-engine post-processor Percolator, we demonstrate improved discrimination power between correct and incorrect peptide-spectrum matches. Our results demonstrate that the drop in performa

SUBMITTER: Skiadopoulou D 

PROVIDER: S-EPMC10563157 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature