An Algorithm to Improve the Speed of Semi and Non-Specific Enzyme Searches in Proteomics.

ABSTRACT:

Background

The identification of non-specifically cleaved peptides in proteomics and peptidomics poses a significant computational challenge. Current strategies for the identification of such peptides are typically time consuming and hinder routine data analysis.

Objective

We aimed to design an algorithm that would improve the speed of semi- and non-specific enzyme searches and could be applicable to existing search programs.

Method

We developed a novel search algorithm that leverages fragment-ion redundancy to simultaneously search multiple non-specifically cleaved peptides at once. Briefly, a theoretical peptide tandem mass spectrum is generated using only the fragment-ion series from a single terminus. This spectrum serves as a proxy for several shorter theoretical

SUBMITTER: Rolfs Z 

PROVIDER: S-EPMC7943061 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature