Predicting peptide retention times for proteomics.

Predicting peptide retention times for proteomics.
Curr Protoc Bioinformatics. 2010 Sep;Chapter 13:Unit 13.14
Authors: Krokhin OV, Spicer V
Abstract
The vast majority of modern bottom-up proteomic protocols include chromatographic reversed-phase (RP) fractionation of peptides prior to mass-spectrometric analysis. Retention time information can be easily extracted from LC-MS data and it can be used to improve protein identification/characterization procedures. The key to the success of this procedure is the correct retention time prediction based on compositional and structural properties of the separated species. Our Sequence Specific Retention Calculator (SSRCalc) is a Web-based peptide retention prediction that covers the separation selectivity of the most popular RP-HPLC conditions applied in proteomics. Procedures for the application of SSRCalc to proteomic analyses are described in this unit.
PMID: 20836075 [PubMed - indexed for MEDLINE]

Source: Current Protocols in Bioinformatics - November 12, 2014 Category: Bioinformatics Tags: Curr Protoc Bioinformatics Source Type: research