Prediction of high-responding peptides for targeted protein assays by mass spectrometry.

ABSTRACT: Protein biomarker discovery produces lengthy lists of candidates that must subsequently be verified in blood or other accessible biofluids. Use of targeted mass spectrometry (MS) to verify disease- or therapy-related changes in protein levels requires the selection of peptides that are quantifiable surrogates for proteins of interest. Peptides that produce the highest ion-current response (high-responding peptides) are likely to provide the best detection sensitivity. Identification of the most effective signature peptides, particularly in the absence of experimental data, remains a major resource constraint in developing targeted MS-based assays. Here we describe a computational method that uses protein physicochemical properties to select high-responding peptides and demonstrate its util

SUBMITTER: Fusaro VA 

PROVIDER: S-EPMC2753399 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature