Mutation-Tolerant Protein Identification by Mass Spectrometry
- 1 December 2000
- journal article
- research article
- Published by Mary Ann Liebert Inc in Journal of Computational Biology
- Vol. 7 (6) , 777-787
- https://doi.org/10.1089/10665270050514927
Abstract
Database search in tandem mass spectrometry is a powerful tool for protein identification. High-throughput spectral acquisition raises the problem of dealing with genetic variation and peptide modifications within a population of related proteins. A method that cross-correlates and clusters related spectra in large collections of uncharacterized spectra (i.e., from normal and diseased individuals) would be very valuable in functional proteomics. This problem is far from being simple since very similar peptides may have very different spectra. We introduce a new notion of spectral similarity that allows one to identify related spectra even if the corresponding peptides have multiple modifications/mutations. Based on this notion, we developed a new algorithm for mutation-tolerant database search as well as a method for cross-correlating related uncharacterized spectra.Keywords
This publication has 15 references indexed in Scilit:
- Sequence and structure-based prediction of eukaryotic protein phosphorylation sitesJournal of Molecular Biology, 1999
- Role of Accurate Mass Measurement (±10 ppm) in Protein Identification Strategies Employing MS or MS/MS and Database SearchingAnalytical Chemistry, 1999
- Protein indentification using mass spectrometric informationElectrophoresis, 1998
- Cdc25 Mitotic Inducer Targeted by Chk1 DNA Damage Checkpoint KinaseScience, 1997
- The Importance of Protein Co- and Post-Translational Modifications in Proteome ProjectsPublished by Springer Nature ,1997
- Error-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence TagsAnalytical Chemistry, 1994
- An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein databaseJournal of the American Society for Mass Spectrometry, 1994
- Fast algorithm for peptide sequencing by mass spectroscopyJournal of Mass Spectrometry, 1990
- Computer program (SEQPEP) to aid in the interpretation of high-energy collision tandem mass spectra of peptidesJournal of Mass Spectrometry, 1989
- Characterization by Tandem Mass Spectrometry of Structural Modifications in ProteinsScience, 1987