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Database Searching in Mass Spectrometry Based Proteomics

[ Vol. 7 , Issue. 2 ]


Attila Kertesz-Farkas, Beata Reiz, Michael P. Myers and Sandor Pongor   Pages 221 - 230 ( 10 )


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.


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


Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, 34012 Trieste, Italy.

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