Current Bioinformatics

Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University
Melbourne
Australia

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Database Searching in Mass Spectrometry Based Proteomics

Author(s): Attila Kertesz-Farkas, Beata Reiz, Michael P. Myers, Sandor Pongor.

Abstract:

Bottom-up proteomics (mass spectrometry analysis of peptides obtained by proteolysis and separated by liquid chromatography, (LC-MS/MS)) is one of the most frequently used techniques for identifying and characterizing proteins in biological samples. A key element of the analysis is database searching when the mass spectra of the peptides are compared with a database of theoretically computed (or experimental) peptide spectra. Here we discuss the main computational approaches to spectrum database searching and the statistical analysis of the results.

Keywords: Database search, Mass spectrometry, Protein identification, Proteomics, mass spectrum, Liquid chromatography, pattern recognition, genome annotation, 3D structure analysis), fragment

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Article Details

VOLUME: 7
ISSUE: 2
Year: 2012
Page: [221 - 230]
Pages: 10
DOI: 10.2174/157489312800604354
Price: $58