Simple Modification of a Protein Database for Mass Spectral Identification of N-linked Glycopeptides
We describe an algorithm which modifies a protein database such that during a database search deamidation is limited to asparagines strictly contained within the N-glycosylation consensus sequence. The modified database was evaluated using a dataset created from the shotgun proteomic analysis of N-linked glycopeptides from human blood serum. We demonstrate that the application of the modified database eliminates incorrect glycopeptide assignments, reduces the peptide false-discovery rate, and eliminates the need for manual validation of glycopeptide identifications. Copyright © 2005 John Wiley & Sons, Ltd.
Atwood, J. A.,
Sahoo, S. S.,
Weatherly, D. B.,
& York, W. S.
(2005). Simple Modification of a Protein Database for Mass Spectral Identification of N-linked Glycopeptides. Rapid Communications in Mass Spectrometry, 19 (21), 3002-3006.