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Reinterpretation of the protein identification process for proteomics data

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Author(s): Kyung-Hoon Kwon | Sang Kwang Lee | Gun Wook Park | Kun Cho | Byeong Soo Kang | Young Mok Park

Journal: Interdisciplinary Bio Central
ISSN 2005-8543

Volume: 1;
Start page: 1;
Date: 2009;
Original page

Keywords: Proteome informatics | mass spectrometry | database search | sequest | mascot | xtandem | tpp | probability

ABSTRACT
In the mass spectrometry-based proteomics, biological samples are analyzed to identify proteins by mass spectrometer and database search. Database search is the process to select the best matches to the experimental mass spectra among the amino acid sequence database and we identify the protein as the matched sequence. The match score is defined to find the matches from the database and declare the highest scored hit as the most probable protein. According to the score definition, search result varies. In this study, the difference among search results of different search engines or different databases was investigated, in order to suggest a better way to identify more proteins with higher reliability.
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Tango Jona
Tangokurs Rapperswil-Jona