期刊
MOLECULAR & CELLULAR PROTEOMICS
卷 7, 期 12, 页码 2452-2463出版社
AMER SOC BIOCHEMISTRY MOLECULAR BIOLOGY INC
DOI: 10.1074/mcp.M800101-MCP200
关键词
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资金
- Korean Ministry of Education, Science and Technology [FPR08-A1-020, FPR05-A2-480]
- Korea Science and Engineering Foundation
- Ewha Womans University [R15-2006-002, R15-2006-020]
- National Research Foundation of Korea [R15-2006-020-02002-0, 핵C6A3704] Funding Source: Korea Institute of Science & Technology Information (KISTI), National Science & Technology Information Service (NTIS)
Identification of post-translational modifications (PTMs) is important to understanding the biological functions of proteins. MS/MS is a useful tool to identify PTMs. Most existing search tools are restricted to take only a few types of PTMs as input. Here we describe a new algorithm, called MODi (pronounced mod eye), that rapidly searches for all known types of PTMs at once without limiting a multitude of modified sites in a peptide. MODi introduces the notion of a tag chain, a combination structure made from multiple sequence tags, that effectively localizes modified regions within a spectrum and overcomes de novo sequencing errors common in tag-based approaches. MODi showed its performance competence by identifying various types of PTMs in analysis of PTM-rich proteins such as glyceraldehyde-3-phosphate dehydrogenase and lens protein. We demonstrated that MODi innovatively manages the computational complexity of identifying multiple PTMs in a peptide, which may exist in a greater variety than usually expected. In addition, it is suggested that MODi has great potential to discover novel modifications. Molecular & Cellular Proteomics 7: 2452-2463, 2008.
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