Journal
NATURE METHODS
Volume 1, Issue 3, Pages 195-202Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/NMETH725
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Funding
- NCRR NIH HHS [RR11823-09] Funding Source: Medline
- NIDDK NIH HHS [DK067598-01] Funding Source: Medline
- NIEHS NIH HHS [ES012021] Funding Source: Medline
- NIMH NIH HHS [R01 MH067880] Funding Source: Medline
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Database searching is an essential element of Large-scale proteomics. Because these methods are widely used, it is important to understand the rationale of the algorithms. Most algorithms are based on concepts first developed in SEQUEST and PeptideSearch. Four basic approaches are used to determine a match between a spectrum and sequence: descriptive, interpretative, stochastic and probability- based matching. We review the basic concepts used by most search algorithms, the computational modeling of peptide identification and current challenges and Limitations of this approach for protein identification.
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